Lost again at 438. =( Same team, still aiming to top 626. Nice work so far Peterko, looking forward to seeing what else you came up with.
Coincidentally, I swapped to Protect on Hydra and Psyshock on Latios as well some time ago.
Psyshock is mostly useful against Ice teams for that stupid snowflake thing and Regice. Better damage on Volcanora is a bonus, though losing the ohko on Conkeldurr kinda sucks. Volcanora and Chandelure are annoying in general since they wall Infernape and can OHKO my other 3 pokemon.
Protect on Hydra is definitely the right move. I haven't had any real speed problems with Hydra and adding Protect for obvious Fighting and Bug attacks just makes thing safer. Looking over the speed list there isn't really anything much between 150 speed and 165 that I worry about (Protect + Ice Punch kills any dragons that Latios couldn't get). On the other hand, Yanmega at 147 and Gallade/Medicham at 145 means you can't really skimp on speed either.
However, I did switch Metagross up to max speed Adamant. You need speed 109 at the very least for Excadrill. 113 speed beats Krookodile. 13 HP really isn't that much and 9 is even less, but 122 speed beats a couple of Volcanora, Chandelures, and Blazikens so I went and changed the EVs.
I considered Grass Knot for Latios myself for a while. For my uses Draco Meteor is only better for the Trick Room/Fling Dusknoirs. I can see how Grass Knot would be useful against Ttar/hippo/mamo. Maybe I'll try it.
Peterko, you missed the two other advantages of Infernape over Hitmonlee: the fire typing adds weaknesses to ground/water/rock (so the AI targets ape and not latios) and the U-Turn/Fake Out combo. A subtle point is that Ape is +Spe/-Def so that SpD> Def for Pory. I am actually considering rebreeding for lower Def IVs to make the AI target Ape even more (still needs SpD for surviving Blizzards). Metagross has a balloon mostly so that Infernape can U-Turn to Metagross against things that may have rock OR ground attacks. Fake Out is of course a priority attack and keeping Infernape alive till the endgame lets me use Fake Out to overcome speed issues. Overheat is nice of course, though I am getting annoying with the 90% accuracy.
Also re hacked pokemon, Dark Pulse and Earth Power on Hydra are illegal, hacked DW abilities on the team or no.