If you run batteries in parallel, hard mount them. If you try to do it with removable cells, you'll inevitably forget to check the charge is the same or worse, put one in backwards. Either one could cause a battery fire.
If you're using flat cells, you can run as many as you want in parallel assuming the tabs are soldered together. There's really no limit there. It lowers the impedance seen by the battery charger, but generally, they can go quite low. I've had no issue with batteries as low as 6 mOhms, which would be equal to 4 of the 1000mAh 20C cells in parallel.
If you want a battery comprised of flat cells with greater thickness, you have to run them in parallel anyway. 6mm is a common thickness for flat cells and I have yet to see one thicker than 9mm. The shop that did some custom cells for me said their jig only goes up to 10mm when I asked. I was thinking of using a flat cell 18mm thick at the time, but found I would have to parallel two 9mm cells. I ended up just using a couple hard mounted round cells in parallel instead.