Export Multiple files from FCP

Somewhere along, I have a feeling, I have overseen something:
I have many clips (about 20 sec each) to encode to 3 different formats.
In FCP I bring the clip to the timeline, trim, color correct it then File> Export> Using Compressor. Compressor opens up and places the clip into the Batch Window. This works fine, but when I go back to FCP, delete the clip from the timeline and place an other clip there and when I Export>Using Compressor, Compressor places the clip in a new Window title "Untitle 1" and so it goes on. As far as I understood, whenever you add a clip from the FCP it places it below the first clip so when I want to add my settings, I can add all 3 settings to all the clips. Did I missunderstand something?

Your workflow is not correct.
In FCP I bring the clip to the timeline, trim, color correct it then File> Export> Using Compressor. Compressor opens up and places the clip into the Batch Window. This works fine, but when I go back to FCP, delete the clip from the timeline and place an other clip there and when I Export>Using Compressor, Compressor places the clip in a new Window title "Untitle 1" and so it goes on. As far as I understood, whenever you add a clip from the FCP it places it below the first clip so when I want to add my settings, I can add all 3 settings to all the clips. Did I missunderstand something?
You're misunderstanding a couple of different things. When you send a clip or sequence from FCP to Compressor, you cannot then apply the settings you want in Compressor then go back to FCP and delete that clip from your sequence ... Compressor is trying to reference that sequence. If you keep removing clips, then Compressor won't follow those clips ... you're essentially breaking the link between Compressor and FCP by doing this.
Try this:
1. Load Clip A into the Viewer, Set your In & Out points and add your Color Correction.
2. Press Command U to Make a Subclip. This will create a separate "clip" in your bin. Rename as necessary.
3. Repeat this process for your other 19 clips.
4. Then Select all of your new subclips in your Browser, then File > Export > Using Compressor. This will open Compressor and add all of those subclips into the Job window.
5. Add your appropriate Target settings and set your Destinations and revise any filenames if necessary.
6. Click Submit.
For a good, quick overview on the basics of how and when to use Compressor, check out this video from MacBreak Weekly: http://www.pixelcorps.tv/macbreak153

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    Your workflow is not correct.
    In FCP I bring the clip to the timeline, trim, color correct it then File> Export> Using Compressor. Compressor opens up and places the clip into the Batch Window. This works fine, but when I go back to FCP, delete the clip from the timeline and place an other clip there and when I Export>Using Compressor, Compressor places the clip in a new Window title "Untitle 1" and so it goes on. As far as I understood, whenever you add a clip from the FCP it places it below the first clip so when I want to add my settings, I can add all 3 settings to all the clips. Did I missunderstand something?
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    *& Report  FILE_PC_TO_SAP
    REPORT  FILE_PC_TO_SAP.
    DATA: BEGIN OF searchpoints OCCURS 100,
            DIRNAME(200)     TYPE c, " name of directory.
            sp_name(100)     TYPE c," name of entry. (may end with *)
          END OF searchpoints.
    DATA: BEGIN OF isearchpoints OCCURS 10,
            dirname(75) TYPE c,            " name of directory.
            aliass(75)  TYPE c,            " alias for directory.
            svrname(75) TYPE c,            " svr where directory is availabl
            sp_name(75) TYPE c,            " name of entry. (may end with *)
            sp_cs(10)   TYPE c,            " ContainsString pattern for name
          END OF isearchpoints.
    data: l_file type filetable.
    data: l_rc   type i.
    data: itab   type TABLE OF string.
    data: g_tmp_file_path type rlgrap-filename.
    data: wa_itab type string.
    data: h_destin(100) type c.
    data: dat      type string.
    INITIALIZATION.
    perform get_directories.
    START-OF-SELECTION.
    parameters: in_file type string OBLIGATORY LOWER CASE.
    parameters: destin(100) type c OBLIGATORY LOWER CASE.
    CALL FUNCTION 'GUI_UPLOAD'
      EXPORTING
       FILENAME                      = in_file
       "FILETYPE                      = 'BIN'
       FILETYPE                      = 'ASC'
       HAS_FIELD_SEPARATOR           = ' '
       HEADER_LENGTH                 = 0
       READ_BY_LINE                  = 'X'
       DAT_MODE                      = ' '
      TABLES
        DATA_TAB                     = itab
    EXCEPTIONS
       FILE_OPEN_ERROR               = 1
       FILE_READ_ERROR               = 2
       NO_BATCH                      = 3
       GUI_REFUSE_FILETRANSFER       = 4
       INVALID_TYPE                  = 5
       NO_AUTHORITY                  = 6
       UNKNOWN_ERROR                 = 7
       BAD_DATA_FORMAT               = 8
       HEADER_NOT_ALLOWED            = 9
       SEPARATOR_NOT_ALLOWED         = 10
       HEADER_TOO_LONG               = 11
       UNKNOWN_DP_ERROR              = 12
       ACCESS_DENIED                 = 13
       DP_OUT_OF_MEMORY              = 14
       DISK_FULL                     = 15
       DP_TIMEOUT                    = 16
       OTHERS                        = 17.
    IF sy-SUBRC <> 0.
      write: / 'Error during loading input file!'.
    ENDIF.
    if h_destin is INITIAL.
      h_destin = in_file.
    endif.
    CONCATENATE destin h_destin into dat SEPARATED BY '/'.
    *TRANSLATE dat TO UPPER CASE.
    OPEN DATASET dat FOR OUTPUT IN TEXT MODE ENCODING DEFAULT.
    IF sy-SUBRC = 0.
      loop at itab into wa_itab.
         TRANSFER: wa_itab TO dat.
      endloop.
      CLOSE DATASET dat.
      write: / 'File uploaded!'.
    ELSE.
      write: / 'Not possible to open dataset'.
    ENDIF.
    at selection-screen on value-request for in_file.
      perform select_input_file_name.
      loop at l_file into g_tmp_file_path.
        move g_tmp_file_path to in_file.
        h_destin = ''.
        SPLIT g_tmp_file_path at '\' into table itab.
        loop at itab into g_tmp_file_path.
          h_destin = g_tmp_file_path.
        endloop.
      endloop.
    at selection-screen on value-request for destin.
      DATA: lt_dfies    TYPE TABLE OF dfies.
      DATA: lwa_dfies   TYPE dfies.
      CALL FUNCTION 'DDIF_FIELDINFO_GET'
        EXPORTING
          tabname    = '/BI0/PCO_AREA'
          lfieldname = 'CO_AREA'
        IMPORTING
          dfies_wa   = lwa_dfies.
      lwa_dfies-tabname = 'searchpoints'.
      lwa_dfies-REPTEXT   = 'Destination directory'.
      lwa_dfies-LENG      = 100.
      lwa_dfies-INTLEN    = 100.
      lwa_dfies-OUTPUTLEN = 100.
      lwa_dfies-fieldname = 'SP_NAME'.
      APPEND lwa_dfies TO lt_dfies.
      CALL FUNCTION 'F4IF_INT_TABLE_VALUE_REQUEST'
        EXPORTING
          RETFIELD = 'SP_NAME'
          DYNPPROG = SY-REPID
          DYNPNR = SY-DYNNR
          DYNPROFIELD = 'destin'
          VALUE_ORG = 'S'
        TABLES
          VALUE_TAB = searchpoints
          FIELD_TAB = lt_dfies
        EXCEPTIONS
          PARAMETER_ERROR = 1
          NO_VALUES_FOUND = 2
          OTHERS = 3.
    *&      Form  select_input_file_name
    *       text
    form select_input_file_name.
    *  call function 'F4_FILENAME'
    *       exporting
    *            program_name  = sy-repid
    *            dynpro_number = sy-dynnr
    *            field_name    = 'PATH'
    *       importing
    *            file_name     = g_tmp_file_path.
      CALL METHOD CL_GUI_FRONTEND_SERVICES=>FILE_OPEN_DIALOG
      EXPORTING
      WINDOW_TITLE = 'Please choose a file'
      "default_extension = '*.TXT'
      "default_filename = 'C:\*.txt'
      initial_directory = 'C:\'
      file_filter = '*.*'
      CHANGING
      FILE_TABLE = l_file
      RC = l_RC
      EXCEPTIONS
      FILE_OPEN_DIALOG_FAILED = 1
      CNTL_ERROR = 2
      ERROR_NO_GUI = 3
      NOT_SUPPORTED_BY_GUI = 4
      OTHERS = 5.
      IF SY-SUBRC <> 0.
        MESSAGE ID SY-MSGID TYPE SY-MSGTY NUMBER SY-MSGNO
        WITH SY-MSGV1 SY-MSGV2 SY-MSGV3 SY-MSGV4.
      ENDIF.
    endform.                    "select_input_file_name
    *&      Form  WRITE_DB_HOME
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    *       no parameters
    FORM write_db_home.
      CASE sy-dbsys(3).
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          CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_ORAHOME'
                             ID 'VALUE' FIELD searchpoints-dirname.
    *--- C5056155 Start of ALV -------------------------------*
    *      PERFORM flip_flop(rsora000) USING cflag.
    *      WRITE: / 'DIR_ORAHOME',       30 searchpoints-dirname.
          MOVE: 'DIR_ORAHOME'        TO searchpoints-sp_name.
          APPEND searchpoints.
    *--- C5056155 End   of ALV -------------------------------*
        WHEN 'ADA'.
          CALL 'C_GETENV' ID 'NAME'  FIELD 'DBROOT'
                          ID 'VALUE' FIELD searchpoints-dirname.
    *--- C5056155 Start of ALV -------------------------------*
    *      PERFORM flip_flop(rsora000) USING cflag.
    *      WRITE: / 'DIR_ADA_DBROOT',    30 searchpoints-dirname.
          MOVE: 'DIR_ADA_DBROOT'     TO searchpoints-sp_name.
          APPEND searchpoints.
    *--- C5056155 End   of ALV -------------------------------*
        WHEN 'INF'.
          CALL 'C_GETENV' ID 'NAME'  FIELD 'INFORMIXDIR'
                          ID 'VALUE' FIELD searchpoints-dirname.
    *--- C5056155 Start of ALV -------------------------------*
    *      PERFORM flip_flop(rsora000) USING cflag.
    *      WRITE: / 'DIR_INF_INFORMIXDIR', 30 searchpoints-dirname.
          MOVE: 'DIR_INF_INFORMIXDIR' TO searchpoints-sp_name.
          APPEND searchpoints..
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        WHEN 'DB6'.
          CALL 'C_GETENV' ID 'NAME'  FIELD 'INSTHOME'
                          ID 'VALUE' FIELD searchpoints-dirname.
          IF sy-subrc = 0.
    *--- C5056155 Start of ALV -------------------------------*
    *        PERFORM flip_flop(rsora000) USING cflag.
    *        WRITE: / 'DIR_DB2_HOME',    30 searchpoints-dirname.
            MOVE: 'DIR_DB2_HOME'       TO searchpoints-sp_name.
            APPEND searchpoints.
    *--- C5056155 End   of ALV -------------------------------*
          ELSE.
            EXIT.
          ENDIF.
        WHEN OTHERS.
          EXIT.
      ENDCASE.
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    * get the name and aliases of ALL userdefined directories
      SELECT * FROM user_dir INTO isearchpoints
        WHERE svrname = sy-uname.
        MOVE isearchpoints-dirname to searchpoints-dirname.
        MOVE isearchpoints-aliass  to searchpoints-sp_name.
        APPEND searchpoints.
      ENDSELECT.
      SELECT * FROM user_dir INTO isearchpoints
        WHERE svrname = 'all'.
        MOVE isearchpoints-dirname to searchpoints-dirname.
        MOVE isearchpoints-aliass  to searchpoints-sp_name.
        APPEND searchpoints.
      ENDSELECT.
    * Get DB home
      IF sy-dbsys(3) = 'ADA'.
        PERFORM write_db_home.
      ENDIF.
    * get name of directory with the error files
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_ATRA'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_ATRA'           TO searchpoints-sp_name.
      APPEND searchpoints.
    * get name of directory with the error files
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_BINARY'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_BINARY'         TO searchpoints-sp_name.
      APPEND searchpoints.
    * get name of directory $DIR_CCMS
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_CCMS'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_CCMS'           TO searchpoints-sp_name.
      APPEND searchpoints.
    * get name of directory with the error files
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_CT_LOGGING'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_CT_LOGGING'     TO searchpoints-sp_name.
      APPEND searchpoints.
    * get name of directory with the error files
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_CT_RUN'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_CT_RUN'         TO searchpoints-sp_name.
      APPEND searchpoints.
    * get name of directory with the error files
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_DATA'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_DATA'           TO searchpoints-sp_name.
      APPEND searchpoints.
    * Get DB home
      IF sy-dbsys(3) = 'DB6'.
        PERFORM write_db_home.
      ENDIF.
    * get name of directory with the error files
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_DBMS'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_DBMS'           TO searchpoints-sp_name.
      APPEND searchpoints.
    * get name of directory with the error files
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_EXECUTABLE'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_EXECUTABLE'     TO searchpoints-sp_name.
      APPEND searchpoints.
    * get name of directory with the error files
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_EXE_ROOT'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_EXE_ROOT'       TO searchpoints-sp_name.
      APPEND searchpoints.
    *get name of directory with the error files
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_GEN'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_GEN'            TO searchpoints-sp_name.
      APPEND searchpoints.
    * get name of directory with the error files
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_GEN_ROOT'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_GEN_ROOT'       TO searchpoints-sp_name.
      APPEND searchpoints.
    * get name of directory with the error files
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_GLOBAL'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_GLOBAL'         TO searchpoints-sp_name.
      APPEND searchpoints.
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_GRAPH_EXE'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_GRAPH_EXE'      TO searchpoints-sp_name.
      APPEND searchpoints.
    * get name of directory with the error files
      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_GRAPH_LIB'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_GRAPH_LIB'      TO searchpoints-sp_name.
      APPEND searchpoints.
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      CALL 'C_SAPGPARAM' ID 'NAME'  FIELD 'DIR_HOME'
                         ID 'VALUE' FIELD searchpoints-dirname.
      MOVE: 'DIR_HOME'           TO searchpoints-sp_name.
      APPEND searchpoints.
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