John,

From what I've heard, it is somewhat difficult to do (but some have done it).

I'd also recommend staying with your current tt system as I did here that they are going to be taking the tt & faq system out (not sure when).

There is a setting in the config where you could turn off the tt system and replace it with a support email address (hopefully, PerlDesk has piping and you could use that address; I use CE so I don't know about PerlDesk having piping capability).