AndiamoAlaparte,
-No Running to dungeons (Running is not and never has been a viable form of travel, and especially not on horseback)
You are asked to stay in character. This means you shouldn't run for long stretches, that's true. However, horses can of course gallop, and you are allowed to do that.
-No Running in dungeons (Moving quickly in a dangerous, life-threatening situation is OOC)
Sorry, but there is no such rule. The in character rule still applies, but of course, you can run in life-threatening situations. The rule is "no OOC running"... running to and from monsters is of course IC. Running from one dungeon to the next, or one loot chest to the next is not. This kind of play style is discouraged on almost every RP server I ever played on.
-No repeating the same dungeon (You're a gold farmer)
Not on the same day, no. Most RP servers have such a rule, though. You can of course do the same dungeon again later.
-No resting in the wilderness (Camping is metagaming and OOC in the FR universe)
This is wrong, there is no such rule. You can buy camping kits in shops, and there are camp sites around the surface. Would that be the case if there was such a rule ? We had people camp inside the town walls, on the road in front of the town gate and so on, so if you were one of those, then yeah, you have been told not to rest on this particular spot.
-No playing characters of Evil alignment (You're too immature to play one without DM supervision at all times)
Ignoring the presumptous comment, the reason for not allowing evil alignment is simple: We had several players of evil alignment in the past. After some time, the "trouble" they caused in character caused out of character grief, and drained us DM of much of the motivation we had. As such, we decided that evil characters would no longer be allowed. This doesn't have anything to do with thinking anyone of being immature, it's just been a drag for all of us, DMs and players alike, so we stopped it.
This is also a rule that is frequently found on RP servers, for exaclty that reason.
-No passing level 5 without applications, applications everywhere! (We don't trust you)
Actually, it's level 4. There are a lot of servers with varrying amounts of applications and restrictions. The level cap system is not there because we don't trust you, it's just to allow us DMs to observe if people play their characters. There are servers out there that don't allow you to level past a certain level if you don#t have at least half of your experience through roleplay XP.
And applications are only necessary for playing divine classes like paladins and clerics.
I can't comment on your experience with the DM, since I wasn't there. I'm sorry if that actually offended you. However, knowing the DM in question, I have my sincerest doubts that there was any bad intention behind it.
If you do not like the rules, I can understand that, and wish you all the best in finding another server that suits your needs better than The Way Inn.