pearling is a good thing, however pearling right after a water change typically means you just added oxygen rich water. not a bad thing, not anything especially great either.
java ferns and anubias are fairly slow growers, and require not a whole bunch of light. if your crypts are showing growth, you have plenty of light for the others.
it can happen at moderate light levels. you are seeing it grow at the tops of the plants nearest your lights. its always a challenge to find the fine line between enough light and nutrients to grow plants nicely, and growing unwanted algaes. your plants look nice other than the bba, i might try going down to 7hrs light a day for a while and see if that helps moderate it.
i think where you now see the yellowing on the anubia leaves is from where the BBA was attached to it. not much can be done about that as the BBA causes damage to the leaves under where it is.
i say its the wood. it can take a while, but give it some time and just do things normally. over the course of many water changes, the tank will get less and less color from the wood.
cant help much with the stem plants, as i kill them quickly, but the sword in the top picture is nutrient starved. maybe try some root tabs as the swords are heavy root feeders.
since mid september, so its still not real mature, so things will keep getting better with it, and when you add plants, they will do many good things for you.