Hi
This is a lot easier with the latest beta version. In the beta version, the RVOController no longer handles movement by itself, instead you use some movement script which can query the RVOController for how it should move during that frame in order to avoid other agents. The movement script may deviate from this (for example using root motion) with some reduction in avoidance quality as a result. So I encourage you to try the beta version and see if you can get it working there. Personally I haven’t tried to apply root motion to it yet.
See also the code sample here: http://arongranberg.com/astar/docs_rvo_fix/class_pathfinding_1_1_r_v_o_1_1_r_v_o_controller.php