Backing up an external hard drive and internal drive to Time Machine

Hello!  I have had my new iMac (21.5 inch, 10.6.6, 2.5 ghz Intel Core i5) for three days now.  I am really nervous about losing my files.  One thing I was really looking forward to on the Mac is Time Machine.
Here is my current setup.  Time Machine is backing up my internal hard drive (500GB) to an external hard drive (500GB).   Lets call the Time Machine backup drive "black" for simplicity.  I have another external hard drive connected as well (500GB).  Let's call it "silver."  The silver drive has all the files I created on various PC's and Macs.  It is formatted so that it can work on both PCs and Macs (MS-DOS FAT 32).  There is 350GB on the silver drive, leaving 149 GB available.  The black one is the Time Machine backup; it was formatted by Time Machine into Mac OS Extended journaled and is currently using 31 GB.
I would really love for Time Machine to back up the Silver drive (that has all of my files) and the internal Mac drive to the Time Machine black drive.  In Time Machine's exclude list, it shows the Silver drive, but will not let me exclude it (it will not let me select it at all).
Is there something that I am missing?  Why won't Time Machine include the Silver drive?
P.S.  I am new to Time Machine, and most of System Preferences, so a little more explanation may be needed.
Thank you in advance!

Just curious, why is it a bad idea to share with Windows?  The files I created on Windows that I want to use on the Mac are things like PDFs, JPGs, MP3s, Adobe Creative Suite files, etc.   I don't know very much about cross platform files other than I haven't had issues over the last four years sharing files with a PC here and a Mac at school (and now this Mac that I own).

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