Yes, it can be safe and practical. But you have to consider how the circuit protection will be done. You will end up with circuit breakers or fuses
at several non-standard locations. Thatís ok but may negate some benefits. A decent marine
or master electrician should advise you so you can stay compliant with fire and safety
standards. The cost will not be insignificant but should be manageable.
Relays in the bowels of the boat controlled by switches at a control panel
are somewhat common. But again, the circuit protection is where the details get tricky.
You may not want to feed the MPPT controller output into your long 4/0 bus cable. These controllers often generate a lot of electrical noise
. It would be lowest risk of interference
to feed the MPPT controller output directly to the batteries. You can afford a little more voltage drop on this pair of wires. But if you really get 1,000W you may wish to put the MPPT controller close to the batteries and run one or two pairs of solar wires to the controller. The solar panels
will generally be higher voltage and lower current
than the MPPT output. These panel fed wires should form a twisted pair if at all possible.
If it were me I would draw out a few (2-3) topologies and take them to a certified master electrician and have a talk about the pros and cons.