First thing is countless radiant pro's take issue with that open system info page that pops up on every DIY'er's google search. Search deeper and you'll read about Legionnaires disease, early system component failure, mineral buildup, etc.
Next is staple up isnt very efficient for an under floor system. Even installing the cheapest aluminum plates you can find will be a big improvement... I like Uponor's Joist Trak for under floor systems, have it in my own house.
Any striping effect depends on the temperature you're running through the tubing, and how long it operates. A lower water temp and a dedicated thermostat for the room would help to keep a more evenly heated floor... Though you said this isnt the primary heat source right? A low temp on constant circulation would give an evenly heated floor.
Most of the horror stories you've read about wood over radiant are likely due to installer error, or poor design.
I somewhat agree with Petr's mud method... Around here it's quite common to see pex embedded in mud and tiled... I've removed them as thin as 3/4" with no visible damage to the tile layer. In the past, I've done 3/8" pex in 1.5" of mud with no membrane without issue. These days I ditra over the mud floor before adding the tile layer. I guess Kelly says it's not an approved method though...
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Alex
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