That is a nice list of plants-are all the species of plants not doing well or just some of them...If so, which are doing the worst and what are they doing-its not uncommon for some natural die off to happen.
How did you plant the different species of plants-especially the one that are not doing well. Might be as simple as planted wrong.
What kind of soil did you use and how deep-what kind of cap and how deep. Type of filter used.
Need info on the lights-type of lights, age of bulbs, kelvin, watts and photoperiod,
More detailed the better so we don't assume....
If you used the correct soil-it should provide all the nutrients needed for the plants without adding any ferts or using the CO2 IME.
What kind of water changes have you been doing since setup and what is the livestock stocking.
Do you have any water prams-Ammonia, Nitrite, Nitrate and pH-also, if you have the GH/KH would help too.
A pic would really help.....