Statistical mechanics is one of the pillars of physics. So yes, physicists do use statistics for a large number of problems. Given the huge number of neutrons involved, statistical methods are entirely valid. Even starting from a single neutron.
Detailed analysis and prediction of fission processes depends upon a lot of second order issues. Even the temperature of the metal matters. A lot of the parameters are found experimentally, so you have estimates of the effective cross section of a nucleus, and probabilities for scattering, adsorption and fission as a neutron hit a nucleus.
A nice simplification can be to work out the probable distance a neutron of a given energy will travel before hitting a nucleus. A neutron will bounce around inside the material, and you might assume that scattering directions are random, and thus the actual distance travelled is a random walk - so the average distance in a mass of material is proportional to the square root of the number of collisions. If your system is exactly critical the number of neutrons escaping from the surface of the material (assume a sphere) needs to match the number of neutrons being created internally. It isn’t a huge leap to get an estimate for the radius of a sphere that meets this criterion - which gives you the critical mass. It is more complicated, and doing things like treating the bouncing neutrons like a diffusing gas can get you closer, along with more accurate experimental estimates of the complicating parameters. Famously, and very sadly, one such experiment during the Manhatten project killed the experimenters.
As noted above, Monte Carlo methods are also very useful. Basically running many computations with randomised initial conditions and looking at the spread of results gains you more insight. Straight mathematical approaches and Monte Carlo co-exist and inform one another.
As the the question about how random neutrons affect things. The answer is that every possibility is important, and this is a key part of atomic weapons. A important point about getting a useful weapon is working out how you get the thing to fission a goodly fraction of its mass before it self disassembles in a ball of plasma - a bang or a fizzle. A simple gun type weapon fires a lump of uranium into a larger lump, assembling the critical mass. Even left to its own there will be a random neutron soon enough around that will initiate fission. A plutonium weapon can’t be used this way. Too many random neutrons. Criticality will occur before the two masses even touch one another and the thing will emit a big puff of plasma and spray plutonium all over the place with no useful result. So an implosion device is required. Getting the thing into a compressed mass before it even realises. The explosion creating the implosion actually compresses the plutonium to about double normal density. Very very quickly. (The gap in technical capability needed between gun and implosion weapon is why rogue nations are usually worried about enriching uranium rather than creating plutonium.)
But you still have a problem if you wan to get a big yield. A chain reaction results in an exponential increase in neutrons, but exponential still starts slow, and you really have a fixed amount of time before the thing disassembles itself. How many doubling of neutrons you get is essentially fixed. So you really want to cut out the early phases and kick start the process by flooding the just now critical mass with neutrons at exactly the right moment. Then your exponential ramp up has some meat to work with. Implosion weapons incorporate a source in the centre of the mass that is initiated by the compression (the pit). Gun weapons can use an external neutron source. Tuning the number of neutrons provided at this moment is probably how variable yield weapons were constructed.
Neutrons are precious, and if you want to increase yield you might add something outside the fissionable mass that will bounce some of the neutrons back again. Sometimes called a neutron reflector, it really doesn’t reflect much - it just adds a lump of heavy nuclei outside the that a few of the exiting neutrons will hit and bounce back into the fissioning mass. Usually called a tamper, this add on can be made from heavy metals like tungsten, or even less fissile uranium (adding a whole new bit of complexity and potential yield). Again, model this statistically. It obviously doesn’t live very long either, but if it can bounce a reasonable number of neutrons back before evaporating the yield will increase.
Modelling neutrons as simple billiard ball like particles banging around inside a mess of much bigger hard balls gets you a long way. Statistical mechanics is one of the great ideas in physics. I remember when I first read though the derivation of the ideal gas law from nothing but ideal particles bouncing around along with conservation of energy and momentum. Utterly beautiful. Amongst other things it provided one of the core bits of evidence to cement in place the atomic theory of matter.