I just locked in and accepted at UC Irvine for their Mathematical and Computational Biology program. I think when every night you go to sleep, and you dream about different schools, and if you're making the right choice that it is time to just decide. I was faced with the common issue:
Offered admission with tuition waived at UC Santa Cruz and Boston University for Bioinformatics.
Offered admission with tuition and offered the full stipend at UC Irvine, and a few other programs.
In the end though, I had to go with the department that just felt like the best fit. UC Santa Cruz was in my dream tier for Bioinformatics, their program is amazing there. The director even asked that I tough it out for the first year and look into funding from various labs and TA opportunities. But, at the end of the day I have to go where I feel like I can be the most productive with a decent quality of life. UC Irvine has a very impressive stem cell and systems biology focus, and I think that is more inline with my research interests.
Good Luck to Everyone!!