Welcome to the site !!
So when you say fuel is fine , did you drain it when it sat ?? or are you running race gas or non ethanol ?? , it is possible that the fuel filter is partially clogged and as you ride the particles from the gas sitting over winter are getting sucked up to the filter and causing it to die .... it is a possibility ...... and needs to be checked ..... they also had issues with the fuel pump themselves , they updated it
https://www.crfsonly.com/catalog/produc ... ts_id/3960
BUT
What I would guess is the most likely suspect is the Stator , I believe they had issues with the first few years of the EFI 250 bikes and stators going bad ..... Do you have a Factory Honda Service Manual ??? , it will have all the test procedures you need to do to test the output , as the Owners Manual does not have any testing procedures for the fuel system or the electrical system ...... Are you getting any checklight error blinks ???
You need to test the stator for output , you can get a Service Manual here
https://www.crfsonly.com/catalog/produc ... ts_id/3226 or from your local Honda Dealer , as unfortunately , I only have a Service Manual for 04-09 250R's , the rest of the years I only have Owners Manuals , which do not give the test procedures or specs needed to determine if any of the above is bad or not .....
, Otherwise I would post up the procedure , and I would bet the 11 is different from the 09 , so I don't think it would help ...
Hope that helped