We use (all of which have 64 bit versions or work around)

Crystal XI - Replacing with Dataflex Reports as no 64bit CRXI
Microsoft Office - MS do some unique proprietary magic to make 32bit Office talk to 64 bit applications I'm not aware of other applications being allowed to do this. A bit like trusted auth on MS SQL can only be used by MS
Various DAE/W libraries like Security, libXL, Graphics etc which I'm sure will be updated at some point