As daunting as all what needs doing to your home might seem, it will eventually all get done, and it all adds value to your home/property. It helps avoid expensive repairs later. Mold growth is very often a cause of a vague kind of illness, so it's important to keep everyone healthy. Sorry this is so long, but I kept thinking of stuff.
I've been through this with different types of buildings, and it's always amounted to don't let in any moist air from outside. Once you have it sealed, if you want airflow you can always open windows for cross-ventilation under controlled circumstances. Drafts are 24/7, so imagine how much moisture is coming in, especially overnight? What's going on outside is coming inside.
- A really good ladder
Invest in at least a 9 foot/3 meter tall, really safe and stable ladder for maintenance inside and out. Even if a 6 footer/2 meter would do it, the stability is worth it. Store it in a dry place so parts of it won't rust.
- Sealing Doors, Windows, Plumbing openings:
It's crucial to seal all doors and windows, plumbing where it enters through the walls or floors with a stretchable silicone-type caulk that is paintable. One brand I know of in the US is called Big Stretch. This stuff has lasted for years and years, no redoing like other caulks I've used. There is probably something similar available in other countries. It has some colors like white and grey and tan, but it's paintable so it doesn't matter, other than the white is handy because it stands out while working, and you know you've gotten the spots filled in without any tiny holes.
Check to see how long it needs to cure before rain. The stretchable part is important because other types of caulk tend to shrink after they dry, or are clear and won't cover with paint, but don't have the stretchability that is important for a building that expands and contracts, even if it's just on wet soil in the winter and dry soil in the summer, even trucks or a train going by and making the ground tremble can affect a building. All buildings move a little bit over the years. I did run across one seemingly good caulk, but it said, "For outside use only," so check labels.
Always trust
mice and rats to find the little openings where drafts are. If you find droppings look around for openings and seal those with the stretchy caulk. If there are exterior trims on the corner of buildings or sheds, reach up under that trim and feel for an opening. Rodents love to chew their way in through these corners. I fill those with the black elastomeric roof tar that is in most hardware stores. They can't chew through this.
-- Windows
About the wooden windows, if there is just mold, just wetness and no rotting, brush on a solution of 50/50 bleach and water. let dry and reapply if necessary. Once the wood dries there is an additive to paint that stops mold and the frames/sills can be painted. It's usually how the windows were installed that creates problems.
If the windows have outside trim on them, if possible, take the trim off and make sure they were installed with caulking all the way around the frame, not just inset then covered with trim. They are easy to caulk once the trim is removed. Not all trim will cooperate, but is easily replaced.
Someone installed a window for me once and they forgot to take the drain plugs out of the lower part of the frame, and the inside sill was wet all the time. Seemed so obvious that should have been done, it took me a while to figure it out.
- Humidity meters
Having a few inexpensive thermometers with humidity meters in them helps to keep an eye on how things are changing or just how bad it is. I've gotten mine at the hardware store for under $10.
- Mortar Checked
Have you had the mortar between the stones checked? Do those need filling or repairing? Mortar is not expensive, and is easy to apply when things are dry, but be careful not to breathe the powder while mixing it. Use a special mask when mixing. It's got bad stuff for the lungs when dry.
- Dry Heat and Fireplace improvement
There are
cast iron fireplace inserts or woodstoves that produce more heat with less wood. They are expensive, but sometimes used ones are available. Using single-wall indoor pipe allows the heat into the room from the pipe as well as from the stove. They need a special piece that goes through the wall, and need to be a certain height above the roof, but if you have stone walls there may be ways around that.
Always have them checked for cracks or leaks, and have carbon monoxide alarms in any room that has a fireplace or a wood stove. Some woodstoves have pipes along the backside for heating water as well, so they are helpful in lowering water heating bills.
Kitchens have their own heat most of the time and don't need extra heat, but often have a lot of pipes that create drafty holes that need sealing.
- Flooring
You didn't mention what type of floors you have, but if they have any kind of fake wood paneling/planking, they are not helping absorb moisture and could be holding moisture underneath. Those tend to be acrylic/wood blends or some kind of synthetic material. Check for moisture and mold trapped under that kind of floor. Often those are installed with a plastic layer of silencing material underneath them, which wouldn't help in a damp situation.
We've recently gotten mats for the doorways that are for wet and muddy pets. They absorb a lot of water brought in on shoes and
boots, shake out easily, and can go through the washer.
- Water Drainage
Is there a source of water flowing under the building? Even if it's just draining in one part of the year? If you see a heavy rainfall creating runoff around the foundation, trench it away from the building. Reroute it with ditches to watch it for a couple seasons. As it's possible to do, either line those ditches with chunks of rock in a stream-like way, or put PVC pipes
underground coming from a French drain "upstream."
- Basement
Is there a basement? Is there excess moisture there, like signs of seeping in the walls? Mineral deposits on the walls that show signs of seeping water? There are paints/sealers for stone walls on basements that will help keep moisture out. The paint or sealer could be used on other interior walls as long as the label says it's okay to use in an occupied room. There are clear versions that should maintain the look of stone. Check to see if those should only be applied in the summer when things are dry.
Venting the basement is important to do, so vents should be all the way around so there's plenty of airflow. Then seal thoroughly any doorway into the house from the basement, all pipe entries, all heating vents.
- Insulation
The driest house I've ever had, had the ceiling of the basement/underneath the floor of the first floor of the house insulated with really thick insulation, R19-R21 with a thick black plastic liner holding it in place and insulation under the roof.
- Sneaky Leaky Roof
Once I had a roof that was leaking just underneath the shingles and on top of the wood, didn't show from inside, and that room was always more damp than the others, sometimes 100% humidity. I wouldn't have known the roof had any issues, except for how damp it was in there. Took me a while to find out where it was leaking. There are tar-type roof repair products that can be used during the rain in a pinch.
- Windows
About the double-pane windows, thermal shades and thermal curtains (both if you can afford them) help keep the cold out. If there is the potential for passive
solar heating on one side of the building where the sun tracks all day, and the side where the sun sets, those single-pane windows will let in the most heat, even if it's overcast late spring through early fall. There is a point where if the outside temp is too cold those windows will let in too much cold, then the thermal curtains help a lot. Even getting a few months of solar warmth helps in the long run.
We have double pane windows and there's still condensation on them when the temps outside are cold
enough and the temps inside are warm. A squeegee onto a rag makes it go faster. There are beads that absorb moisture at the craft store that can be dried in a low-temp
oven and reused. Fill a thin fabric bag made of an old thin cotton sheet the width of the window and place these on the sills or hang one in each window. These are not the squishy beads that are used in floral arrangements. Try a few and see if they help, every situation is different.
- Trees
If you've got large trees that are creating a lot of shade and keeping your situation damp, you might want to consider trimming, lowering, or thinning them. Trees are great, but shade contributes to mold growth, especially on the non-sunny side of the building where you don't need summer cooling from trees.