collision problem:
caused by insolence
use entity to inject machines into your map and they will work just fine
y use insolence to inject things anyway
green problem:
caused by bsp
build your map on one of the following bsps
containment - neutral lightmap - editable with uberlightmaptool (i suggest that one)
sen_hq_5 - blueish/icy lightmap (floodzone.map)
cableroom - goldish/hot/stormy lightmap (floodlab.map)
cableroom2 - goldish/hot/stormy lightmap (floodlab.map)
bsp_transition - dark lightmap (deltatowers.map)
bsp_transition2 - dark blueish lightmap (deltatowers.map)
those bsps are supporting machines.
otherwise if you dont want to do that you need to null the LMTP tag in the SCNR tag of your map.
That will fix the green too but will delete any shading.
Everything looks one toned and the lightmap is gone.
if you gonna use containment,
inject the containment bsp into gemini because the deathzone of gemini is proper.
if you need help at that stuff ( injecting bsp