I'll probably get some flack for this, but: most Lawler games? I don't think I've ever actually had fun from the shooting and flipping on FH,WW,TAH,TZ. Not that I don't often enjoy playing the games, but their layout is severely lacking.
Spiderman and Star Trek have almost the same layout, but I can't stand Spiderman. The rules aren't interesting at all. Star Trek's code isn't the most engrossing thing out there, but...
For an older example, look at all the Gottlieb EMs with two banks of drops (Spirit of 76, Fast/Quick Draw, Far Out, probably more). The upper halves vary a bit but the main aspect of their layout is the same. But in Spirit of 76, all you do is complete the drops to light double bonus: boring. Fast Draw gives you the cool sharpshooter targets after you're done, fun itself and a nice reward for getting there. Far Out has a great risk/reward system involving which banks/targets are lit. When I first played Spirit of 76, I found it to be incredibly boring, and stayed away from 'dual drop' layout games for a long time. Changing the 'code' and suddenly Far Out is one of my top games.
I often see the layouts of Skateball and Flash compared. Flash definitely has better 'flow' than Skateball, but I find Flash to be a snoozefest due to the rules.
A lot of people love the JJP games, but every time someone talks about the layout it's complaining.