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Do you still use the Heatmap theme? It looks like a great theme but hasn't been updated in quite some time according to the wordpress site.
Personally I don't think you need to use heatmap, it's better to have your own control and make the theme you want to have. Most themes can be easily altered to add good ad placement.
Heatmap is a great theme and I currently use it with great results. The theme itself does not give me great results but its my traffic that can afford me great results. Wordpress has been updated a few times but the theme still works seamless with wordpress so I don't see why you should be concerned to use it. I must say also that you can achieve the same thing that heatmap offers with most premium themes so its your choice.