Have you ever thought about booking your flights and accommodation separate, well i did and it worked out i got my holiday cheaper than booking through a travel agent.

I went on to the budget airlines (see below) and got some cheep flights as they always have deals on than just used the internet to find accomodation which was at a high standard but cheap in cost.

Airlines
Ryanair
Fly Be
Easy jet
Jet 2
BMI Baby

Accommodation
www.travelsupermarket.com
www.expedia.co.uk
www.lastminute.com

It seems to work best in Europe but i have not personally tried to book a holiday further than Europe so let me know how you get on.