As someone who just bought an 09 fjr, i have had same issue. Coming from a Vstrom 650 the shifter area might just be compact enough that the toe of my boot holds it up a little and like others said doesn't allow the lever to return to center. I'm trying to get a little more seat time before i make any changes to the bike, but i've experienced this a couple of times already.
Honda QA50 (when i was 5) Sold.
Honda XR650L Sold.
Suzuki VStrom 2014
Yamaha FJR 1300 2009