I looked into microbial fuel cells several years ago. I found it fascinating, but never got around to making anything. I suspect the ones with an aqueous solution would be too temperamental to make work on a small scale, and I wondered about the longevity of the proton exchange membrane.
It's one of those things where I felt we have been deceived by "science." All my life, I had heard there are two types of bacteria: aerobic and anaerobic, and aerobic needed oxygen. It turns out they don't, but rather they just need oxygen's electron configuration. If deprived of oxygen, they can move other electrons if provided. If they flow through an electric circuit, so be it.
The main idea I ended up with was actually the most permaculturey even though I hadn't heard the word at the time. Aerobic bacteria live in the top layers of soil, as deep as oxygen penetrates, as I understand. I imagined having a layer of stainless mesh, or even better a layer of charcoal (if it conducts well
enough) below this layer (where there is no oxygen) to act as an electrode. Then on top of that layer would be a layer of normal soil complete with bacteria and plants growing normally with a corresponding electrode in it. I think it would be possible to establish an electron environment where the aerobic bacteria would live happily shuffling electrons between the two electrodes and through our circuits. I suspect the energy density would be rather low, but the system could be made quite huge, and would hopefully be maintenance free (maintenance would be very difficult if ever needed) and would be quite environmentally friendly. I'm sure this is an oversimplification, and there would be many details to figure out such as spacing, soil\clay type, bacteria type, plant type, etc., but the basics of it make sense in my mind.
And he said, "I want to live as an honest man, to get all I deserve, and to give all I can, and to love a young woman whom I don't understand. Your Highness, your ways are very strange."