I see why not, you could install them both, and use symlinks like you would on Linux. I'm thinking Strawberry Perl which doesn't seem to do Arch separation by default, so for each module you will have to install it twice. However, which Perl distribution are you using?

Perl\
+-- Perl_5.14_32\
+-- Perl_5.14_64\
+-- perl32 --> .\Perl_5.14_32\bin\Perl.exe
+-- perl64 --> .\Perl_5.14_64\bin\Perl.exe
[download]

Do you have a list of Modules handy that don't work. Perhaps somebody here has some suggestions on how to deal with them?