I actually read that article and the MacMillan article, which is what spurred thus question.
My first go around is going to be on a tikka in the factory walnut stock.
After that I have a Howa in a maple stock.
Earlier this year I undertook my first bedding project, a Howa in the factory wood stock. I used the aluminum "pillars" that came in the stock and epoxied them in. Then ground out everything for clearance and bedded with Devcon. So, ended up with bottom metal directly on the pillars, but bedding compound between the top of the pillar and the bottom of the action. Seems to work fine and the rifle still shoots great groups. It's a hunting rifle so I did not over think the whole expansion ratio business, will just give ample time to cool at the range between strings. Ideally will be one shot and done in the field!
I did take pictures throughout the whole process and i've been thinking about sitting down to do a write up, specific to bedding the Howa actions. I learned a lot of good info from this resource too: MatchGrade Bedding Compound Instructions