904 Linkage seems off?

Rebuilt my 904 and added a shift kit. The new valve body plunger came with instructions on how to align with the shift mechanism. Everything is back together and the car goes down the road and shifts nicely but a couple of issues. The kickdown linkage is connected but does not downshift when I put the pedal down. If I manually put it in second it downshifts but when I put it back in drive it stays in second. The other day it stalled coming off a light so I put in neutral and restarted and the car lurched backwards like reverse was engaging. Is the valve body plunger the issue?