Er? Who canceled all your extra training? Why can't you do whatever you want?
GTG will take away a chain of movement. For example, if you're doing GTG dips you won't really be able to do GTG pushups or handstand pushups or anything pushing-wise really without hindering yourself. Also, pushing exercises in your workout will suffer too.
I do skill work before working out... which happens to be working towards one arm handstands at the moment. As for programming it doesn't affect it.