The whole concept is to make sure that the dissolved CO2, in your case by the diffuser, get used up by the plants as much & as long as possible before the left over is sucked out by the filter. So if we agree on this concept then you can easily answer your question yourself, right ?
For my 5 ft tank, where the filtered water input is on the left of the tank & the output to filter is on opposite side, the diffuser is closely located to the input outlet.
Hope this helps.
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