Just solder neatly to the pads - there's no need to get solder on the vias!
There's also no need for low temperature solder unless you are attempting to reflow the inductors in place as originally assembled. If you do use Bi containing low temperature solder, be aware its typically much weaker than 'regular' SnPb or SnCu/SnAg solders, so SMD adhesive under the inductors to reduce the stress on the solder joints would be essential for reliability
If you want a nice neat job, without reflowing it, I suggest starting by soldering short insulated jumpers to the inductors, slightly over one inductor diameter long, parallel, sideways (same side), at right-angles to the center-line through both inductor terminal pads. Clean all flux residue off the joints and dry thoroughly. Then stick a disc cut from 3M foam VHB tape over the inductor base and the jumpers, leaving the release paper on, and bend the jumper leads up at right-angles at the edge of the tape.
You should then be able to easily solder the other end of the jumpers to the inductor pads on the PCB with the inductor lying on its side, clean up any flux residue, then peel the release paper off the 3M VHB tape and fold the inductor down into place.