I suspect the T-Vent Mod will solve your problems. On rough terrain, woops, or a tip-over, poor venting causes fuel to build up in the vent line and not drain properly, which causes the bogging or difficult restarting. This is a well-known issue with these bikes, typically solved with the T-Vent Mod. Fuel is always sloshing around in the carb and some will enter the vent and needs to be able to drain out. When you removed the boot the fuel that came out may have been excess fuel that was in the vent line trying to get out - it just ran back into the carb. T-Vent Mod is cheap and easy - suggest you do that and go for another ride. Let us know how you make out.