Faction Transfer to Alliance; Worgen issues?

The first time you log into World of Warcraft after faction changing a character, you will always start in that faction's home city.

The exception to this is if you faction change an established character to the Worgen or Goblin race, as their 'home' cities are phased starting areas for new characters. In these instances you will end up in their 'associated' home city (the cities where the faction quartermaster resides), IE: Darnassus for Worgen, and Orgrimmar for Goblins.

The exception to the rule is if you change races within a faction - IE: Undead to Orc, in which case your hearthstone will remain at it's previous location.