Hi!
I had the exact same issue on my A1200 (Mouse buttons worked, but no analog paddle status at all) and took it completely apart without finding any issues, including measuring voltages and what-not.
What fixed it for me was to plug in a Joystick to the mouseport (with machine running), move it around wildly, unplug the Joystick and plug in the mouse again.
And it works again. Give it a shot, might just work as it did for me.
KR,
- G