Alli, I know this seems drastic, but if you think there's mold in the soil that's making you sick, I would get new pots and new soil, and re-pot all those plants. Rinse all the soil off them and replace it with fresh sterile potting mix. Rinse the tops of the plants too, there could be mold spores lurking on the leaves, too. OR just buy new plants (but if they've been outside, there's no guarantee they won't have mold in the soil too).
Btw, wear a fiber mask, hat and long sleeves when you're getting rid of the old soil, do it outside preferably, put the contaminated soil in a plastic bag and seal it up and throw it in the trash. Change your clothes and wash them right away when you're done, take them off before you go in the house preferably . . but if you can't, strip down next to the laundry basket and turn the clothes inside out as you remove them. All this to prevent spreading the mold spores around even more inside your apartment. Vacuum thoroughly with a good vac with a Hepa filter. Replace your furnace/ac filter with a high quality, 'ultra allergen' one.
Then, (I know this is hard) keep some plants inside, and some plants outside, and don't bring any outside plants in any more. Btw, I doubt the mushrooms have anything to do with the scratchy throat etc. but if you see mushrooms in your plants, better pull them up, put 'em in a ziploc and get them out of the house before they make spores.
IF all that doesn't help, better look around for another source of what's making you wheeze!
