The LT95 4 speed you have is about the strongest box LR ever used, and is much stronger than the 5 speed. The torque pulses from the 4BD1 engine give boxes a hard time. Shop around for a decent second hand box. The Perentie boxes have the roller taper bearing conversion in the transfer case, and is worth keeping - they are an expensive bit of kit.
Parts for a rebuild are around $1000 so the price you've been quoted seems ok I suppose. Are you handy with the spanners? You could at least remove the box yourself and save some dollars. Probably not a beginners box to try and rebuild yourself.
We need Bearman to chime in now, not much he doesn't know about these units.

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