Tell us more....what size jets.....what intake etc.

I didn't mention that I've been running the set up for 8 years with no issues. 

I put on custom pipes then and rejeted the carbs.

I didn't do the work but the point is it ran great for years.

I store it with stabblizer each winter. This year I have the issues. 

Stabilizer isn't a cure-all. Probably a clogged side hole in the pilots.

Okay, no offense, but have you 1) checked your air filter and 2) checked your fuel filter?  I was having backfiring issues on my 2003 1100 cc Silverado with 65K miles, and was thinking about scheduling a visit to my local Yamaha dealer, but thankfully decided to check last time I had replaced air filter and fuel filter.  It had been awhile.  Replaced both.  Problem solved.  So, check basics first (blush).

None taken.

I have a hyper charger with a K&N filter which I recently cleaned and retooled.

I haven't changed the fuel filter so that I will do.

I think  the carbs are the source of my issue.

Thanks for the input.

All suggestions are welcome. 

Have you drained the tank and filled it with fresh gas? I run at least 89 octane. Among all the other suggestions made here, you also might pull the plugs and see if they show signs of running lean, or rich. I doubt yours will be as clean as in this picture- but a white residue is often a sign you're running lean, in which case running at 1/2 choke would make the mixture richer.

The plugs were black from too much fuel.

Fresh gas this spring. 

It has been suggested that a needle popped out. 

Going to take the tops off to see if one did.

Hopefully it's that simple. 

Thanks for your input, appreciate any help

I find it is usually just easier to change the main and pilot jets every few years to avoid issues like this. Even with stabilizer and some seafoam each year. 

I just fired mine up after a couple years last night with clean carbs and it spit, sputtered for a few miles with all new and carb cleaner. Running much better after a few laps around the neighborhood:-)

Sure I thrilled the neighbors.