I don't run a garage either but we can help work out a ROM.
The thing with Minis is that they tend to rust from the inside-out. That's to say water works its way into places and the first you see is when it bursts through the outer panel. The only exception tends to be the boot floor where water gets trapped above the subframe and bulkhead where brake fluid eats the paint.
So, the sills. If they are original and haven't been bodged before it should be possible to remove and refit new in a day for a competent panel beater. If there is lots of grot then the time (and therefore cost) will go up. Two ways it can go wrong - first is if you have to pick apart previous bodges, this can easily add another day to the work cutting out old welds and snot. The second is if the inner sills, jacking point, cross-member and/or main floor panel have rotted as well. Each will add time and it's quite difficult to work out how much until you start but it could be as little as an extra day for just inner sills or a week if everything has rotted out.
For the boot floor, that's the same sort of story but the main reason for extra time will be if the subframe needs to be removed. You may get away with a neat patch in the floor done from above (it's a boot floor, as long as the rot is cut out, appearance isn't quite so important) but if the subframe needs to come out you have the risk of snapping bolts and the hassle of disconnecting/removing fuel and brake lines, handbrake cables and the exhaust. So lots of fiddling about before you can get to the metal work.
I would say a save lower limit of 2 days effort (sills, boot floor plus some small unknowns) with an upper limit of a couple of weeks if everything behind those small holes is rotted out.
The only way to help you make that estimate more accurate is to see pictures of the affected areas. Regardless, be very wary of anyone that says it can be done in a few hours for £100, I can guarantee the result will be less than stellar.