Something strange has started happening in my game. I've finished the two main quests (Dragon and Civil War). I just went back to Solitude for the first time since the war ended (Stormcloaks won), and I was attacked by the Jarl there--the new Stormcloak Jarl, not the chick that was there when Solitude was run by the Empire. His assistant attacked me and my companion, too. But, all the stormcloak guards defended me. Since the Jarl is a protected character, I left.

I couldn't get my campanion to leave with me, so I just left her there. I figured she'd show up again sooner or later.

I don't fast travel, so I took the long road back to Whiterun. I went to Dragon Bridge, then south on the road. When I got to the plains west of Whiterun, I was attacked by...stormcloak guards!

I get to Whiterun, and there's no problem. I even talk to the guards to make sure. No problem.

I sell some stuff at the smith when I come into Whiterun, then I go to the archer's shop immediately across from the smith. That dark elf drew his bow and chased me outside! Outside, the guards started to pound on him for attacking me!

Curious, now, I go into the tavern, and the chick that can be a companion--the one in steel plate--pulled her two-handed sword, spouting off how I should be ashamed to be a Nord.

Are these all Imperial sympathizers? Nobody else in the tavern attacked me. Doesn't make sense why the stormcloak soldiers on the road attacked me, though.

Then, I went to see the new Jarl in Whiterun. No problems.

So....what gives?

The Jarl of Solitude never get's replaced.

Perhaps she has a bug that causes her to go hostile? Maybe that affects others in Solitude's Hold.

Not sure about Whiterun

It wasn't the Jarl of Solitude, then. I didn't get names. There was a lot going on over there. I popped back over to Solitude, and both are gone now. Everything is peaceful in the Blue Palace.

That got me curious about Whiterun. At the Drunken Huntsman, the dark elf who owns the place is mysteriously missing. The place is open, and the patrons move in and out. But, he's not there. Hmm....I wonder if the guards killed him when he was trying to kill me.

And, at the Drunken Huntsman, the chick that attacked me has settled down. She doesn't do that anymore.

Strange behavior.

Update. I thought everthing was OK. It was getting late, and I needed a friendly skin on which to lay my head for the night. So, I stopped in on the Stormcloak camp just west of Solitude...and they all attacked me! I'm the hero of the stormcloaks, and each of them attacked me.

So, I run off to Solitude. Everything is fine until, right when I enter the city, Jee-ra, the Argonian, attacks me. The guards defended me against the lizard, but he still kept attacking.

What the heck is going on?

Check your stats page, Delte - you may have murdered someone...
Either that or long, extended play sessions may have corrupted somehow.
I know what you're doing is harder on your rig than fast-travel (which reloads new cells on a regular basis) instead of you walking slowly all the way through them.
But you should be able to do that if you wish. (Reminds me of Call of Pripyat, lotta walking in that game, heheh)

I know, it's kinda challenging to go back to earlier savegames but, don't know what to tell ya...
If you killed some Stormcloaks though, even accidentally, maybe this can happen.
Pretty strange though.

All the defeated Imperials should be down in the basemant of the Blue Palace, go down there and check them out, they should all hate your guts.
If they don't, then...?
Well, go check it out first, then we'll see.
Regards

I've got a large, 6000 septim bounty, from killing Imperials when I see them (and going through the Imperial camps after the war). Just before the Stormcloaks attacked Solitude at the end of that quest line, I tried to enter, but the guards started attacking me. Me and my companion left.

Then, we played the end of the Civil War quest line, and the Stormcloaks took Solitude.

I still have my 6000 Septim bounty, but none of the Stormcloak guards seem to care. I've tried talking to them to see if I could pay it. There's no problem.

With the above, Jee-Ra, or whatever his name is (something close), I left Solitude, did another quest, then ran into the Argonian again--without any problems. I even got the quest from him to put out the light house fire.

Strange how it comes and goes.

Maybe as my cells reset, the problem will go away.