Installed Acrobat Pro 9 - requires password to open any PDF & botches InDesign exports to PDF

Installed CS4 on my new Mac, using the downloaded installation file. Everything works except Acrobat. I uninstalled Acrobat & reinstalled it. Same problems remain:
1a. Everytime I open a PDF, I get this message:  "Adobe Acrobat Pro wants to make changes. Type your password to allow this." I have to enter the username & password for my computer to open every PDF. Then they open correctly.
1b. If I open Acrobat from the Applications folder, without opening a file, I get the same message & must enter username & password to open Acrobat.
2. From InDesign, I export PDFs using File > Export. The PDFs have little rectangles for about half the text in the entire document. I routinely export both hi-res (Print Quality) and lo-res (Smallest File Size) PDFs in InDesign & this happens with all of them.
Most of the work I do results in PDFs. None of them have password protection or other security. I don't see anything in Preferences that looks like it would relate to these issues. Help, please!

Go the the Applications -> Utilities folder. In there you will find the Disk Utility app. When you run that application, you can select your hard drive. Then click on the Fix Permssions button.

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