If the water looks like it has rust flakes in it, I would suggest hosing out everything until it runs clear (including the heater core) and then maybe think about a coolant filter to keep the heater core from clogging up with the scale that is sure to come off the engine after refilling the system. I did this with my wife's 2000 and the filter clogged in 2 weeks. Lots of chunks. Changed the filter and new one lasted 2 months... and the last one lasted the rest of the year (from install) and wasn't clogged yet (still dirty).
The one I used was:
https://www.amazon.com/gp/product/B000CSINYU/
and I added heat rated valves to keep from creating large air pockets or having the system drain out while changing said filter: (This also creates a shut-off point in case the heater core dumps it's guts.)
https://www.amazon.com/gp/product/B006VE3CI6/
I use this no-chemical filter: https://www.amazon.com/gp/product/B0014B8S8A/ Where I mounted it over the suspension this allows clearance for the upper control arm to not hit it. The full size filter gets beat up.
The one I used was:
https://www.amazon.com/gp/product/B000CSINYU/
and I added heat rated valves to keep from creating large air pockets or having the system drain out while changing said filter: (This also creates a shut-off point in case the heater core dumps it's guts.)
https://www.amazon.com/gp/product/B006VE3CI6/
I use this no-chemical filter: https://www.amazon.com/gp/product/B0014B8S8A/ Where I mounted it over the suspension this allows clearance for the upper control arm to not hit it. The full size filter gets beat up.
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