Hi Micro,
As a general rule of thumb, if any of the molecules (Sulphuric acid for one) contains sulphur, then you will produce H2S to some degree. Hydrochloric acid also has its negative aspects, as it is quite corrosive to metal (albeit, in its neutralized form, it is forming a salt - which could be Calcium Chloride, sodium chloride, or any one of a number of salts). Salts are usually less corrosive than the acid, but when you look at automobiles that drive through winter roads that have been salted, you will see corrosion at work on the fenders of older (and some newer) automobiles.
Most bacteria are very sensitive to pH changes. Check the preferred pH range of the microbes that you are planning on using.
I wish you well,
Eugene