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When I was more into overclocking several years ago I remember doing the same thing on my CPU heatsink - measuring the different temps with the fan pushing or pulling. In the case of a regular CPU heatsink, where the fan points down to the CPU, when you have the fan push the cold air passes over the cooler extremities of the fins before it gets to the hotter base of the heatsink, while when you pull the air through you get colder air passing by the base of the CPU, creating the bigger temperature differential there. Depending on the heat transfer within the heatsink itself, either way could be optimal.
I really think it is down to the application, and the best way to work out what is best is to try both ways as Leon has done.
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