Mighty No. 9 on Wii U. Loading after every death. Which is common due to some very stupid design decisions. Waiting 12 seconds before the next try is already too long for me, it kicks me straight outta the flow. The other versions load faster.

Fallout and ES games come to mind along with ARK.

Most GTA games have brutal initial load times.  There's also ton of games in the early CD-ROM era and on PS1 / Saturn that have some brutal load times as well.  The worst was whenever you were stuck on a level or would die easily, and then have to immediately go back and sit through all that loading just to get back to the point you were at.

Watch Dogs for Wii U, I literally had a book near me to read whenever the game was loading something.

Also, can't believe I forgot, but WipEout HD. Loading a race takes forever. I took a bathroom break, made a sandwhich, and wrote this post while waiting for a race to load.