As Andy said, the best way to stop algae in low-salinity brackish tanks is to use lots of fast growing plants. Slow growing plants (e.g., Java fern) have no effect at all. You need Vallisneria, Hygrophila, etc. Depending on the species, there are standard aquarium plants that will tolerate 1.003 to 1.005. See the excellent pinned topic in this section.
There are also some good algae eaters at your disposal, though the effect that this will have depends a lot on the context. If you have plants, then algae eaters will polish off the last remnants of algae pretty well. If you have an aquarium with tonnes of algae and no plants, then all the algae eaters will do is further fertilise the water. Anyway, mollies and Florida flagfish both eat a lot of algae, and violet gobies will eat some, particularly from rocks. Nerite snails and algae shrimp (amano shrimp) will also do well in low salinity tanks, and some nerite snails (olive nerites for example) and take anything up to marine salinity.
The other way of looking at algae is that it's part of the brackish water habitat. Once it gets to a certain thickness it can actually be quite attractive, and it's often best to simply wipe the glass at the front but otherwise let the algae do its thing. Most fish prefer algae instead of bright rocks and clear glass, and things like scats and cichlids will nibble on its periodically.
Cheers,
Neale