My 2002 yamaha r1 was stolen and retrieved but ignition was beat out and now it wont start?

SOURCE: No electric to start YZF R1 motor bike,

check kick stand safety switch is working proper

SOURCE: engine wont turn over when start button is pushed

Starter button. The only problem with that is you'll have to replace the whole combo with the run-stop,starter switches, etc;...

SOURCE: yamaha virago 535 turn ignition on neutral light

These are known for starter problems... The clicking you hear is the relay but the bendix is locked up put it in about 3rd gear and rock it hard forward and back. Bendix may release. Make sure battery is good. As I said before these bike are well known for their starter problem and even after having it fixed by a dealer problem seems to show back up after a very short time. Good Luck!

SOURCE: 2002 Yamaha Vstar 1100 Custom. STARTER Problem

The starter button is used in an open circuit design.
You must press the starter button to "Close" this circuit before the starter will engage. Taking the starter button out of the loop helps support the suspect short. Assuming you kept the starter button wires from touching. :) If not, it is most likely the starter button.

Trace the wires coming from the starter button.
There could be a short circuit. (Same as pushing the starter button). Check along the handle bars and anywhere rubbing could cause a break in the insulation. Try this at night with the lights off.
You may be able to SEE the spark and locate it quickly.

Good luck!