1. The good quality glass intake pipes shouldn't be restricting inflow, unless the intake slits are really narrow and few... usually they have sufficient gap size to maintain the required amount of inflow. I guess you just have to check and see. The glass intakes i've used so far which have worked well without issues are the gUSH and VIV brand glass intake pipes.
2. For most setups, the lily pipe and intake pipe should ideally be placed close together centrally on the same side, this is to generate an optimal circular flow pattern in the tank. Here is a diagram for reference from
ukaps.com:
Photo source:
http://www.ukaps.org/index.php?page=...h-planted-tank
3. Both acrylic and glass pipes will still get dirty at the same speed, the main difference is that acrylic is easier to clean without requiring as much extra care in terms of handling (it can withstand knocks and drops), but acrylic does tend to slowly lose some clarity over time as its is brushed and cleaned (fine scratches/scuff marks slowly develop on its surface)... on the other hand, glass lily pipes maintain their clarity throughout even after repeated brushing and cleaning, but they require more care when cleaning and handling.
Glass pipes also come in many different designs for different flow pattern requirements (ie. lily, jet, poppy, violet, spin etc), so there are more choices... whereas acrylic pipes currently only come in the standard lily design.
Inflow pipes do need abit more work to clean compared to outflow pipes, but its still relatively easy with a good flexible pipe brush, its just a matter of scrubbing the pipe walls and slits properly to clean off the algae and dirt.
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