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Even the best coolers need some 'lapping in" to get a good surface to surface contact and there are ways to put the paste on that gives better coverage.
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Not all HDT coolers need to be "lapped" or polished by using several progressions of emery sandpaper. The walls on the pipes have already been ground down and one should be careful on how they do it so as to not weaken the HDT pipe walls.
There are several good brands of TICs (thermal interface compound) on the market these days. It's too bad too many novices use the generic stuff that comes with some coolers. The high-end and aftermarket coolers usually include a good quality compound. Some compounds need a break-in period, others don't. The newer ones don't need any break-in time and give good results from the start. All compounds will improve with a few days time and a several shut-down cycles.
Here's an excellent article from
Benchmark Reviews.com on how to apply thermal compounds, the different methods and different styles of CPU coolers.
Best Thermal Paste Application Methods