I created a new wiki page as a place to brainstorm new functions that should be added to Foldit, to allow us to enhance our Lua scripts. http://foldit.wikia.com/wiki/Lua_Functions_That_Should_Be_Implemented
This can be a place to brainstorm about what functions need to be added, what arguments they should take, and what they should return.
Ideally, anything a human can conceive of doing to a structure, a script should be able to replicate. What kinds of things do you do manually that you cannot have a script do?