Hey, I don't know if this is the right place for this, but I didn't find a better one, but in case it's wrong here: I'm sorry, please move it.
I stumbled over a video about the main quests of Skyrim and Morrowind yesterday and I thought it would be a good video to watch to remember what the qualities of Morrowind were that we wish to recreate here.
LOOK AT IT
CAUTION: SPOILERS FOR SKYRIM'S AND MORROWIND'S MAIN QUEST OBVIOUSLY
Please bear through the first few minutes that seem to be a pretty unfair rant against Skyrim at first. I don't want this to be some kind of Skyrim VS Morrowind thread.
I just think in the second part of the video where he talks about Morrowind and it's qualities, he makes some very sharp observations about what makes Morrowind feel different from Skyrim and makes it a game with one of the most intriguing and convincing game worlds out there.
I always felt like there were a lot of differences between Morrowind and the later titles in that quality and I thought I knew why. But even after over ten years and at least 3 playthroughs, this guy manages it to find a few things that contribute to this feeling that absolutely made sense to me but I wasn't aware of them before watching this video.
TL;DR: Watch this video to remind yourself / let it explain you why Morrowind is such a special game for so many people and where that feeling comes from, so you can keep this in mind when trying to recreate this special feeling in Skyrim.

I watched it a couple of days
I watched it a couple of days ago, and I agree with most of the points he makes, but while Skyrim's main quest was poorly written, and most of all, badly paced (theres a mod for it, cant find it right now though), the side quests are quite nice. Every major faction (Thieves guild, mages guild, companions, dark brotherhood) has a very fun questline, with a fun ending that answers most, if not all of your questions. The biggest problem, atleast for me, were the dungeon crawls. I hate them with a passion, and the long load times (I only recently got an ssd) didn't help.