I just had this discussion with the elder statesman at my local Suzuki shop, and his answer to whether the inline filter is affected by the vacuum was a resounding "No!" and that he had installed an inline filter on his 650GD and other bikes with no problems. The only pitfall is to make sure that the fuel isn't travelling uphill at any point in the system.
There is a discussion about this on the Kawasaki forum:
I ended up with the same fuel filter in the above discussion (the same as the ones from Z1 Enterprises). I suppose that placing it closer to the tank protects the fuel line from accumulating rust, but it might swing or bounce around a little more than if it is nestled amongst the carbs.
I think I'm going to mount it lower down, between the carbs rather than higher up, but I don't see much danger in it being in either location. I'll let you know how it goes for me once I get my 650 back together and have run it for a while.
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