Thomas, who had filled in during Nick Robinson's absence, will miss at least three weeks after damaging the AC-joint in his right shoulder during last weekend's defeat to Leinster.
It is yet another blow for the Blues who are already down to a skeleton team amid a catalogue of injuries and will leave coach Dai Young with third-choice fly-half Nick MacLeod for Monday's local derby against Newport Gwent Dragons at Rodney Parade.
Thomas said: "It couldn't have come a worst time, I'm gutted. I'd had a run of games in the starting team and there are some crucial fixtures coming up. This is going to be a very frustrating Christmas."
The Blues will also be without centre Jon Bryant, who made his debut for the club on Saturday, under the conditions of his move from the Dragons last week. However Tristan Davies made his return from a hand injury against Leinster and looks set to start.
Rob Howley and Josh Lewsey addressed more than 250 community club coaches and referees at the first WRU National Community Conference on the weekend. The volunteers benefitted from coaching masterclasses and workshops in a bid to connect all levels of the rugby pathway in Wales.
UEFA has today confirmed the Football Association of Wales (FAW) has been successful in its bid for the Millennium Stadium to host the 2017 UEFA Champions League Final on Saturday 3rd June, 2017 (kick-off: 19.45hrs GMT).
The winners of a filmmaking competition organised by the education charity Into Film and the WRU enjoyed a behind the scenes tour of the Millennium Stadium - and a chance to be photographed with the WRU's fire-breathing, rugby loving mascot, Scorch The Dragon, and Welsh international, Jake Ball.
The Wales Under 20 camp are in a quietly confident mood as they face Ireland in the U20 Championship, with Coaching Co-Ordinator Allan Lewis and full back Dafydd Howells targeting a top five finish in the tournament.