Why won't Acrobat X Pro edit text?

Question

Hello Acrobat experts.  I recently upgraded from whatever version of Acrobat Pro was in CS2, to Acrobat X Pro, which is part of CS6.  In the CS2 version of Acrobat, there was a very functional and effective "touch up text" tool which I used often to change words here or there in scanned documents.  Usually I would get a little message saying an identical font was not available, and that a substitution would be made, and a few moments later, I was able to edit and replace text to my heart's content. 
When I first played with Acrobat X Pro, I couldn't find the  touch up text tool, so I went to the help site, and watched a nice video by Jon Bessant showing how to edit text.  Wow, it looked really simple.  So I attempted to make simple one word text changes in a scanned document, and I got some rather odd black blockish shapes over the lettering I had selected, which looked like what I saw in the video.  That only happened a couple of times. Usually, it appeared as though the program wasn't responding.
Sometimes, the funny blockish shapes started to show up in all manner of places on the page, not related to the single word I wanted to change. 
So I found in the help documents that if tex is not recongized, that I need to go to Tools/Recognize Text/In this file.  I did that, and I got screen indications that my document was being scanned/processed, much as I had seen in my old CS2 Acrobat 2.  But when I went to try and edit text, still, nothing would happen.
The help instructions say that "If you can't edit the text, see Replace custom fonts with local fonts.  Those directions tell me to usse the TouchUp Text tool, but trying to execute those directions, nothing happens. 
The text I am needing to edit, is simple Times New Roman font, scanned in with my same scanner that I had used for PDF editing with my old CS2 version of Acrobat Pro. 
Help, what do I do???????????????  Thank you, Chuck

Answer 1

Thanks Steve,
We are exporting PDF's as you indicate. I see the same thing. The boxes are all the size of the original InDesign document. The PDF art box should be predicated by the margins in InDesign. When we had CS3, this worked great. Now, it seems that there is a disconnect between the two Adobe products honoring the page box size. I have contacted the Adobe techs via chat, and they had no clue what I was referring to. I find it mystifying that Acrobat can not interpret the art box set in InDesign as margins.