I think that there is a little give and take here. on the one hand, yes. Skillshots take a bit more skill to land seeing as they don't
- curve mid-flight
- extend past their normal cast range to catch fleeing or flashing targets
- pass through intervening units (a good portion of skillshots stop after impacting on one target while most, if not all, point-and-click abilities pass harmlessly through multiple bodies to collide with the intended target)
The trade-off is GENERALLY that point-and-click abilities have shorter range than skillshots and will not cast until you are in range to hit. This means you can be more easily kited. If you click Rune Prison on a champ who then starts moving away, you will continue to chase them into dangerous territory if you don't actively break off. Where as, Vel'Koz' Plasma Fission Can be cast from safety, behind your team and requires no target.
BUT Plasma Fission can be intercepted by minions or beefier champs and protect your intended target.
Most point-and-click abilities do not have the ability to hit multiple targets with a single cast. The skillshots that have this feature are GENERALLY shorter range than single hit, body-blockable skillshots.
There's a few comparisons to emphasize the balance between point-and-click and skillshot abilities. I hope that helps.