It's really just a question of patience. First off, you can't really do much in the way of custom animations. YET. The animations of the soldiers' skeletons are hard coded into the engine at this time. (That's why you need them if you're just dying to get your character in the game.) Lua has no real control over skeletal animations at this time. It will. About the best you can currently do (that I'm aware of) is if you have an animated object that loops, you can make it do that; just edit the fpe file: Animate in editor = 1. I believe you can trigger that in Lua as well, in fact, I think I accidentally did it once, but since it wasn't my goal, that script went away EDIT
I may have even posted it around here somewhere now that I think about it). As far as making your characters future ready for reloaded from blender, simply export as direct x, checking the boxes that apply. I can't remember off the top of my head which ones, but they were pretty self-explanatory, worked the first time, maybe the second. You need your fpe file set up for you character/object, and that and all textures named appropriately in the same folder. Using Animer apparently takes care of some of that but I don't know for sure. Even so, you still won't have working custom animations. YET. Also, check out the videos and other tutorials for a step-by-step. I guarantee you will learn something!