No. If the program works, disregard any other messages or warnings that may appear. That's pretty much universal when running many of the programs that have had "medicine" applied. (Man I love that wording. Where was it in the day?).
Not trying to be flippant, but you could always buy the program if the "healed" version's (is that term correct?) actions bother you.
Another general rule of thumb is when you have had a previous version of the same program, little left-behinds here and there in the registry and program data can effect future installs no matter what kind of commercial uninstaller you use. In fact it's time for me to do a clean Windows install to clean out all the nasty stuff from all the junk I have installed and removed.
Being this is not a warez forum, that's about all I feel comfortable posting here.
-Dog