The only purposes of selecting a skill for the Major and Minor categories is that you'll get a boost to them at the start of the game and leveling them up will count towards your character's level. Keep in mind that you do not need to Major or Minor in a skill to use it. If you don't plan on using Cast on Use items to heal yourself you'll definitely want Restoration. Depending on the sort of character I am going for I often choose Alteration and Restoration as Minor skills. It's up to you which magics you'd like to specialize in I personally almost always choose Mysticism as a Minor or Major skill. Don't bother with Destruction unless you want to be a mage.

Mysticism along with Alteration and Restoration are the most commonly used magics with Illusion in 4th place and Conjuration in 5th. You'll also want to use some magic too for utility purposes, opening locks (Alteration), teleportation (Mysticism), healing yourself (Restoration). Usually most players recommend you start out as a melee character who specializes in Long Blades and Light or Heavy Armor. Furthermore there are very few end game Bows for you to choose from if you go the Marksman route. Also, unlike in Skyrim and Oblivion the Marksman skill (aka Archers) are not very powerful either. If this is your first time playing Morrowind I would recommend you do not play a Mage as they're the weakest class by far in the game.

The first thing you need to figure out is what sort of character you'd like to play. Even if you know absolutely nothing about this game it's typically recommended you do not pick one of the custom classes available because all of the custom classes are crap. When you first start out in Morrowind you will be tasked with creating a character and choosing which Minor and Major skills you'd like to have. Creating A New Character Guide - Elder Scrolls Morrowind

Morrowind merchants with most gold