No I'm not saying that all, adding organic matter/compost and supplying nutrients is a good idea, but mix it in to the whole thing or at least the top few inches. Don't make a special planting hole filled with some medium that is different than the surrounding medium, e.g. don't make a hole filled with potting mix, peat, compost or whatever to put the plant in or you'll run into the types of problems mentioned in that article.
If using bone meal I would be careful not to add too much. Phosphorus is highly reactive and locks up very easily, plants can't use most of what's applied to the soil, I've seen figures as high as 95% being unavailable. So if you keep applying heavy amounts it's going to accumulate and accumulate since it's not water soluble. If the pH is over 7.0, then all of the phosphorus from the bone meal gets locked out. Mycorrhizal fungi help plants uptake phosphorus among other things, but excess phosphorus in the soil inhibits their growth.
Fair enough on all accounts. When I prepare the soil for planing, I make sure I mix it throughout the growing area, you're right about the bathtub effect. Amending only in the immediate area you're planting inhibits growth in the long term, and possibly worsens conditions in the short term (in a raised bed setting, it's a good idea to loosen the soil where the raised bed is going, if applicable, for the same reasons).
When I say a healthy amount of bone meal, I mean a light dusting in the bottom of the planting hole (usually less than a tablespoon), which is then mixed in the surrounding soil before adding another light layer of dirt and finally the plant itself. And this is usually only when I prepare a bed for the first time- in subsequent years the soil doesn't need as much amendment for the most part. I just loosen it a bit and plant as usual.
Tilling your bed year after year and adding more fertilizer just causes organic material to be broken down faster. You will need to add new organic material occasionally, but the rate of application is exacerbated by over-fertilizing. Many of the nutrients should already be bioavailable to plants, possibly with some light additional ferts when the plants need them.