I had the same problem... Had to stop using hudbot.
I've been using 1.40 recently, which looks like it's got a new version of hudbot built in... I haven't had a problem with it yet besides the occasional freeze up during mission change, and IFF swaps when stealing enemy vehicles and using chameleon armor.
http://www.dfclan.org/1.40/Tribes%201.40.655.rar