[Makinus]

If Min 90+ or Org 130+ or Rad 110+= dedicated min/org/rad planet
If Min 90+ AND Rad 110+ = monolith colony
If resources low = A Shipyard and the remaining slots with research or intel facilities.
All breathable planets above small size (medium, large and huge) have a shipyard (and sometimes a BSY or two), regardless of the use of the planet (resource, research, intel)
All my systems must have a minimum of 1 shipyard and 1 resuply depot (i end with around 3 or 4 shipyards using the above rules)
If i have a min/org/rad/monolith planet with less than 10 facility slots i build 2/3 resource extraction and 1/3 resource storage facilities in the planet...
When i have training centers i build them in the unbreathable/low resources planets that previously had one shipyard (that i maintain) and some researh facilities (that i scrap for the new facilities)

The resource concentrations can increase or decrese according to the needs of my empire and the availability of a particular resource...

As a end result i normally have 3 or 4 shipyards for every system (being 2 or 3 in tiny moons)and 1 ressuply depot per system.... if i need additional ship-producing capabilities in a system i build additional BSYs...