*RSE-Route 113(Snowman FTW!)
*DPPt-Route 209(sounds like 21 guns which is a song I like)
*BW-Gym leader last Pokemon(I'm pretty sure they used this in the anime when Sandile fought the Ducklett. They should've saved it.
*Bw-Emotion(Again, they used it when Ash was talking about Sandile's sunglasses. They really should have saved it.)
*BW-N's Farewell (Mother 3 love theme made it my favorite song.)
For me, it has to be Gen I's Gym Leader Battle/Lance. It's such a fantastic tune, with such a simple execution. I really, really love the drama and pace behind it and I find myself humming and whistleing it very often. I like playing it when I'm playing on another game and something dramatic or tough is happening, for example when I am playing a crunch game on Football Manager. In fact, it's #5 on my iTunes with 400+ plays. I have all the Gen I music and that is by far my favourite, and favourite overall.
Other songs worthy of mention are;
Bicycle (I actually listen to this when I go cycling; it puts me in a happy mood)
Vermilion City (An uncomplicated but catchy tune)
Goldenrod City & Bicycle (Both have a similar tune, but Bicycle's tune is faster)
Champion Battle, Lance (It's impossible to dislike this tune, and the satisfaction of crushing his Dragonites into oblivion)
Gym Leader Battle RSE (Also a great tune with excellent underlying drama)
Gym Leader Battles Kanto & Johto (Superb covers that do the originals justice)
But I cannot overstate how much I thoroughly enjoy Gen I's Gym Battle theme!
Pokémon Mystery Dungeon: Time Gear, Hidden Land, Hidden Highland, Temporal Tower, Temporal Spire, Primal Dialga Fight, Through the Sea of Time, Guild Theme, Opening Theme, Ending Melody, and Dusknoir.
Main Games: N's Farewell, National Park, Last Pokémon of Unovan GLs, Kanto GL theme, Team Plasma, N's Theme, Archie Fight, Gheetis Fight, Cyrus Fight, Giratina, Cynthia's Prelude, and the RBY Champion Theme.
Vermillion City, Lavender Town
Azalea Town, Cave theme, Gym theme
Littleroot Town, Verdanturf Town, whatever was playing in the Lilycove art museum
Route 47, all of the Gen II remixes (Sinnoh wasn't that great in the music department)
Village Bridge, Undella Bay, maybe Castelia... and that's it (Unova was even worse XD)
Absolute favorite, RBY Gym Leader Music. The FrLg remix is good as well, but when it comes down to it, nothing beats the original. The best battle music of all time. No other gym leader theme has come close to this. It's just well-made. I didn't feel that in any other game for the gym leader battles.
As for champion themes (they do tend to be generally better than the rest, after all) the Hoenn Champion battle is the best. Cynthia gets a close second, with Lance following after
As for wild pokémon, HGSS/GSC Kanto takes that.
Best evil team music, team Aqua/Magma simply has the best music, despite being the worst team. Odd, but it's at least one redeeming quality.
I don't really think of the music in so many cities as special, so I don't really care about those. What I want is some awesome music when it's actually action.
However, I really think Snowpoint's music is very fitting, and soothing as well. That must be my favorite music that's not a battle music.
Lavender town takes the second. Like Snowpoint's music, it just feels right for the town, and sets a special mood. That's what makes them so great, not because they're really amazing, but the setting and mood they create is just perfect.
I like nearly all of the Kanto music, but only because it's so nostalgic. I do love some of the new music of HGSS, such as the path to the Safari Zone, and Black and White have a lot of amazing compositions as well. Nimbasa City is an example.
HGSS Lavender Town
HGSS Suicune Battle
HGSS Mt. Moon
HGSS Kanto Trainer Battle
HGSS GB Sounds Cerulean City, I think
HGSS GB Sounds Seafoam Islands
BW Village Bridge
BW Legendary Battle
BW Lacunosa Town
BW Stardom the Musical
PMD Explorers of Darkness/Time Primal Dialga Battle
PMD Explorers of Darkness/Time That Song That Plays When The Main Character Has a Dream
PMD Explorers of Darkness/Time Final Maze