Hey MattyP,
at Werribee I'd like to see:
-Eastern Barred Bandicoot
-Fat-tailed Dunnart
-Plains-wanderer (!)
-Squirrel Glider
and at Healesville:
-Mountain Pygmy-possum(!)
-Leadbeater's Possum(!)
-Brush-tailed Rock Wallaby
-Helmeted Honeyeater
-Lyrebird
-Orange-bellied Parrots
(Do they still have Numbats?)
And I also wouldn't mind seeing Platypuses and Tawny Frogmouths again because they are just kinda cool^^
in the nocturnal house at Healesville (yesterday):
*mountain pigmy possum
*feathertail glider
*spinifex hopping mouse
*common ringtail possum
*bilby
*Leadbeater's possum and long-nosed potoroo
*squirrel glider and eastern barred bandicoot
*sugar glider
All of them were very active and easy to see, despite it being 2pm on a Saturday with a lot of noisy visitors. The only not-so-easy one was sugar glider where I only saw one, and only on the second time round the house. Given how active everything was, around 2pm may be a feeding time. I went back in around 3pm and everything was still perfectly viewable.
The orange-bellied parrots at Healesville were off-display (temporarily). They have them at Moonlit Sanctuary too, though, so you'll see them somewhere in the Melbourne area.
The brush-tailed rock wallabies are easy to see in the walk-through wallaby enclosure.
The helmeted honeyeaters are easy to see in the Endangered Species walk-through aviary, and also in a separate aviary next to the walk-through past the wallabies (the walk-through is labelled as "kookaburras" on the map).
The lyrebirds were trickier. The male is new and shy. They are in a walk-through aviary. I saw him briefly but I'd seen three the previous day at Sherbrooke Forest so wasn't too bothered. There is a scheduled talk in the aviary at 1.15pm (I think) when you would be guaranteed of seeing them because they get fed then.
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For the molochs at Melbourne Museum, currently one or both are fed at around 11.30am (no exact time) but they remain in the tank on display for several hours to feed.