You are right to be concerned over the described change, it is a sign of weakening fish, especially in Corydoradinae species. There are a few problems that I will say with certainty will affect the cories--and some of these issues the other fish in time. I will do my best to explain.
First, the substrate. Sand is essential for cories, and especially the three "dwarf" species. [BTW, is the species
Corydoras pygmaeus, or one of the other two (
C. habrosus, C. hastatus)? Worth knowing, though what follows applies to all regardless.] I don't know what "gravel" may refer to here, but anything larger in grain size than very fine river gravel is long-term a problem because anything that adds stress to a fish can exacerbate any other problem. All Corydoradinae species are technically/scientifically termed "filter feeders," and this is an instinct programmed into the fish's DNA and thus important. Smoothness of the substrate is another factor but even if smooth gravel is still problematic; for one thing, bits of food more easily get down where the fish cannot reach it, causing increased bacterial issues for substrate fish. We can move on to the much more critical issues, but keep a change to sand (or another tank with sand for the cories) in mind, and question me later on pursuing this issue if you like.
Water parameters. Temperature at 80F is way too warm for any cories on a permanent basis, and again especially problematic for the dwarf species. [Another brief aside--small sized fish have higher metabolisms, which means they work harder to maintain necessary physiological functioning, and so detriments have more impact too. And as the temperature directly drives the metabolism of each fish, this can be a serious issue.] The temp should be down around 75/76F, absolutely no higher for the cories on a permanent basis (increasing heat to deal with something like ich is temporary). The lower temp will not harm the other named fish, at least no where near as much as the cories.
Another aside (sorry)--don't know how you dealt with the ich, but most soft water species are much more sensitive to many medications, and cories are in this group. Heat, with salt
sometimes, is far safer.
The other parameters (GH, KH, pH) are OK for the cories (and cardinals) but are frankly a slow death knell for the two mollies. This fish
must have moderately hard or harder water (it cannot be too hard, realistically (GH
minimum 12dGH (214 ppm or mg/l) up to 30 dGH (537 ppm or mg/l); the cories and cardinals will not benefit from this though. Straight well water might be best for the mollies depending upon the GH/KH/pH of your well water on its own; I'll move on to the next issue as the GH is not the cory problem, but the additives to achieve it may be.
Re softening the water. Can you explain how you are achieving this? None of the mentioned additives will impact GH/KH, and the comment that the GH is slowly increasing is reason enough to sort out why. Parameters in any fish tank should be quite stable over days, months, even years; this applies to GH, pH and even nitrate [which is not a parameter but a condition and another topic].
I know nothing about aquavitro seed, but the info on their site reads "rapidly and safely establish the aquarium biofilter; synergistic blend of aerobic, anaerobic, and facultative bacteria." This sounds like a nitrifying bacteria supplement of some sort, and if so will not have any impact on GH. And once the aquarium is biologically cycled/balanced, should be unnecessary. Perhaps harmless in its own right, but any substance added to the water without good reason is best not added, as these do impact fish.
The plant additives are a concern. While these can sometimes aid the plants, depending upon the light (light intensity/spectrum alone is what drives photosynthesis, so nutrients just have to be sufficient for the plants' needs in balance with the light), they are still additives to the water and can impact fish, depending. Minimal is always better than excess, which usually means problem algae as well, but no matter; for the sake of all fish, minimal. Substrate tabs for larger rooted plants are a better option for this reason, though floaters and upper water plants obviously gain no benefit for substrate tabs. But it can be surprising how little additives may actually be necessary to keep things balanced. But there is one additive mentioned that is very dangerous, and that is Flourish Excell, and Flourish Iron can be deadly too.
"Flourish" I will assume means the
Flourish Comprehensive Supplement for the Planted Aquarium, to give it its full name. I have been using this for years, but carefully. You might well find that
Flourish Tabs inserted one next to each of the rooted sword plants, replaced every 3 months, will provide even better response than the liquid alone, it certainly has for me and I have zero GH water so no minerals there. FT do not release nutrients into the upper water column, hence they get to the plants in the substrate but not into the fish.
Iron should absolutely never be added alone, but only in a careful balance with all other required nutrients (there are 13 if memory serves me, all are in FC for a list except oxygen, hydrogen and carbon). Iron is often, or used to be, touted as the plant "cure" but it is only a micro-nutrient, and in FC it is in balance with the others so unnecessary. Iron is a heavy metal, deadly to all fish and plants in excess. And here again, what goes in the water is most likely diffusing across the fish cell membranes and entering the fish's bloodstream. Less is better.
Excell is certainly as bad if not worse. This is glutaraldehyde and water. This substance is used in embalming fluid, antifreeze, ship ballasts to kill bacteria--you get the idea. At bottle-recommended dose levels it usually kills Vallisneria and some other plants which should warn us of its dangers. If overdosed it can kill plants, fish and bacteria. The fact that it is reported to kill brush/beard algae is another warning sign. Nothing like this should ever go in a fish tank.
Which dechlorinator are you using? They are not all equal, believe me. Some contain toxic additives, some need more to work (= more in the water and more inside the fish). May have more when I know.
Hope this helps. And don't discourage, we all learned the above, and we want others to be successful, and not in time give up and leave the hobby as often occurs. I've been there too.