Route 101: Lillipup, Zoura, Sewaddle
Route 102: Lillipup, Tympole, Gothita
Route 103: Shellos, Chatot, Lillipup
Route 104: Chatot, Pidove, Sewaddle
Route 105: Frillish, Krabby, Skrelp (OR) Clauncher (AS)
Route 106: Frillish, Krabby, Skrelp (OR) Clauncher (AS)
Route 107: Frillish, Krabby, Skrelp (OR) Clauncher (AS)
Route 108: Frillish, Krabby, Skrelp (OR) Clauncher (AS)
Route 109: Frillish, Krabby, Skrelp (OR) Clauncher (AS)
Route 110: Shellos, Chatot, Trubbish
Route 111: Gible, Sandile, Dwebble
Route 112: Ponyta, Tyrogue, Throh (OR) Sawk (AS)
Route 113: Scraggy, Bouffalant, Klefki
Route 114: Misdreavus, Skorupi, Tympole
Route 115: Clefairy, Misdreavus, Pidove
Route 116: Eevee, Pidove, Joltik
Route 117: Rattata, Tympole, Deerling
Route 118: Raticate, Aipom, Luxio
Route 121: Hypno, Aipom, Elgyem
Route 122: Finneon, Alomomola, Frillish
Route 124: Finneon, Alomomola, Frillish
Route 125: Seel, Finneon, Frillish
Route 126: Finneon, Alomomola, Frillish
Route 127: Finneon, Alomomola, Frillish
Route 128: Finneon, Alomomola, Frillish
Route 129: Finneon, Alomomola, Frillish
Route 130: Finneon, Alomomola, Frillish
Route 131: Finneon, Alomomola, Frillish
Route 132: Finneon, Alomomola, Frillish
Route 133: Finneon, Alomomola, Frillish
Route 134: Finneon, Alomomola, Frillish
Petalburg Woods: Paras, Phantump, Cottonee
Granite Cave: Onix, Timburr, Axew
Fiery Path: Diglett, Tyrogue, Roggenrola
Jagged Pass: Mankey, Ponyta, Tyrogue
Safari Zone: Kakuna, Buneary, Pidgeotto
Meteor Falls: Clefairy, Dieno, Druddigon
Shoal Cave: Delibird, Dewgong, Cubchoo
Mt. Pyre: Growlithe, Elgyem, Bronzor
This is for all areas in Hoenn not including the mirage spots. You can find some of these Pokemon at mirage spots (Such as Onix)
Hope I helped!
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