Blues had trailed to Joseph Akpala's third-minute opener but roared on by more than 5,400 travelling fans they equalised through David Murphy's slick finish in the 26th minute.
Blues then took control and Adam Rooney had two excellent chances to put them ahead before the half time interval.
Brugge looked a lot smarter after the break and had the lions share of possesion although they created few opportunities in front of goal.
Then, as the game looked to be heading for a draw, Pablo Ibanez was knocked unconscious in worrying fashion and during time added on for the Blues defender's treatment Marlon King crossed into the box where Wood stole in at the near post to score a dramatic winner.
The 2-1 win at the Jan Breydelstadion took Blues to the top of Group H with six points gained from their three games played and with Maribor only managing to draw 1-1 with Sporting Braga in the other group game they now have a real opportunity of reaching the knockout stage.