No, the better reputation of a university does not equal better job prospects. Why do people believe this is true? Employers aren't going to decide someones capability on whether you went to USYD or UWS, they'll base it on academic achievement, work experience and commitment, not the 'prestige' or 'reputation' of a university. Physiotherapy at UWS is actually really well established. They have got great, new facilities and from what I hear, a very hands on program.
$20k is actually a lot, especially for a University student, and especially for a University student who is unemployed. Also, chances are if you don't get 98 to mid 98 for Physiotherapy at USYD, you probably won't be accepted into Physiotherapy at UWS because the cut-offs at the moment are of .35 difference.