I was getting on the highway today and when i was getting up to speed it started to sputter or lightly back fire. It started around 55 mph and stoped when i traveled for a few hundred feet. I slowed down and tried it again and it did the same thing.

So i went back to town and noticed it did it now at slower speeds whenever putting my foot on the gas.

All fluids seem to be ok and and no gauges are off. and the check engine only blinks when i am starting to gain speed.

Any Ideas on what it could be.

Flashing CEL is a multiple/random misfire, if you checked your codes you'd have at least a P0300. If you haven't done so in a while, it's probably time for new cap/rotor/plugs/wires. Make sure you follow the tsb on wire routing, they get crabby if you just bunch them together. And no platinum plugs. There are lots of threads on here discussing plugs, but the champion truck plugs and autolites are from what i remember the "acceptable" ones.

So is it bad to drive it like this?

Check the fuel pressure, cat and plenum also. http://dodgeram.info/tsb/2000/09-05-00.htm

Misrouted plug wires on #6 and #8 can cause this problem.

nothing in the motor has been touched in about a month. which is when i put a new battery and alternator in. And normal fluid fills and just checking to see if anything is bad. But i have not taken anything but the alternator off in 6 months.

If it is plug wires/distrbutor why the HELL does it have to be si difficult to get back there. I was going to see about pulling it apartr tonightbut when i got the K&N air filter system off i just said F@#$ it. which was at like 1:00am

It could also be an injector plugged on the inlet side. Let the truck idle and then unplug an injector. If the idle changes, then the injector is OK; otherwise, there's a problem.

Just got the check engine light scanned and it came up with cylinder 2 misfire.

Any ideas

Does anyone know which one is cylinder #2

While sitting in the driver's seat --
Left bank, from front to back: 1,3,5,7
Right bank, from front to back: 2,4,6,8

Check the plug, plug wire, cap and rotor, and the injector as VW stated above. And get a Haynes manual.