Hi Nathen,
I assume you are land based?
Bare Island is always a good starting point, just be careful depending on the swell. Good for squid morning and evening. Not just around the foot bridge, move around a bit. The usual suspects of the rocks. Yarra bay for flatties off the sand. After some bigger stuff, salmon, kings etc, head around to Browns rock beside the golf course. You can catch some squid and yakkas there for live bait but it does get busy.
Hope this helps
alasdair