New problem.
I have re-installed BC, Foundation, KM1 and Mleo's menu mod.
All mutators are on, Specs work in game. I tried the jjrefit and everything works including warp warm up.
But the jjmk5 has spec but when I try to warp it crashes to desk top! If I try the same ship with specs off the ship warps without problems.
As a side note since I re-installed when I warp I have no transition time between planetry systems?