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Having the same issue… We have a 2016 HRV, never had any issues with water in the rear gate until yesterday. I went to close the hatch and heard the slosh! I live in Portland, OR and we had record rainfall the past few days that might have something to do with it. I had an issue with our sunroof leaking last year into the floor board that was an easy fix I cleaned out the drain plugs in the sunroof opening, haven’t had a problem since. The rear gate is a new one I also noticed today water building up inside the right side taillight. I will call Honda to let them know I’m having the same issue and reference this forum doubt they’ll help but doesn’t hurt to try! I’ll check out the suggestions y’all have given in this discussion and report back on what I find.
 

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Brilliant Sporty Blue Honda HR-V 1.5 iVTEC SE 6 Speed Manual
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Just a suggestion for those experiencing water filling the rear hatch.

Take the rear hatch interior plastic trim off and line the interior with tissue paper or something similar. Get a pressure washer and give the rear hatch from the rear screen down a 5 - 10 minute going over with the pressure washer. Leave it a while and then remove the rear interior panel and see if there is any water on the tissue. If there is, then the issue may lie with either the body coloured plastic panel directly below the rear screen (with the Honda logo) being loose, or the seal between the rear screen and that panel.

There was an issue with the hatchback variant of my last vehicle where rain water would build up in the gap between the rear screen and bodywork, this would run into the interior of the car whenever the hatch was raised. Some people reported the water eventually ended up in the spare wheel well, whilst others stated it managed to find its way into the rear panel resulting in issues with rear lights, or a musty smell. It was recommended to either fill the gap with a silicone sealant which seemed to work, or open the hatch very s-l-o-w-l-y to allow the water build up time to run off before it got into the interior.

If no joy with that, repeat all of the above, but concentrate the pressure washer around the rear spoiler and see if the tissue is damp or not. When I first purchased the car I found it a little disconcerting to see just how much I could get the rear spoiler to wiggle whilst cleaning the car. It was one of the main reasons I got a tow bar fitted, as there was no way I could trust the spoiler it to support the weight of my two bikes on a conventional rear hatch bike rack.

Well aware that all of the above will be a right PITA, however, if you are currently not getting any joy with Honda, then the problem is not going to go away, unless you sell or trade the car. If any of the above do prove what the cause is, then it will provide you with the opportunity to take your vehicle straight round to Honda and hopefully get them to address the issue on more favourable terms; repair, compensation, extended warranty, better trade in, or what ever floats your boat.
 

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I used silicone sealant in this area and problem solved : )

^^ My wife somehow popped loose that same plastic hatch panel below the rear window the other day.
She said her hand slipped off the hatch release button/handle.

I removed it fully, cleaned it all up, replaced a couple of the green plastic clip/fasteners and had a close look at the hatch.
Just like the rear hatch spoiler, it's all very cheap and chintzy.
IMO, the entire HRV rear hatch is very cheap and chintzy.

Neither the hatch rear spoiler nor that rear plastic panel under the rear window are designed to prevent water from getting under them.
But there are plenty of ways for water to get into the rear hatch and flow directly over rear hatch taillights once water gets under them.
There are numerous holes for the clips, numerous other holes, plus once water gets under that rear plastic panel, it's running directly to the rear hatch taillights.

Preventing water from getting under the rear spoiler and that rear plastic panel is the 1st step for preventing water getting into the rear hatch and the hatch taillights.
While sealing the top edges of the rear spoiler and the plastic panel with silicone sealer is simple, getting those parts off in the future would be a challenge.

We have never had water in our rear hatch nor any of the rear taillights but when we bought our used 2016 HRV 2 years ago, I put peel and stick foam on the top edge of the rear spoiler to prevent rattling and looseness.
I just did the same with the plastic panel under the rear window. 1/4" wide, 1/4" thick foam weather stripping on the top edge.
Good quality closed cell dark grey foam, comes on a roll from Home Depot.
This prevents most water from getting underneath but you can still remove the panels for service.

The rear hatch spoiler is easy to remove but has unique plastic clips/fasteners. Call your local Honda dealer to make sure they have local stock before attempting to remove the rear spoiler.
The plastic panel under the rear window uses the standard green plastic clips which are readily available.

Of course this won't help with water getting into the main rear taillights on the quarter panels.
 

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Brilliant Sporty Blue Honda HR-V 1.5 iVTEC SE 6 Speed Manual
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It doesn't take much pressure to make the tailgate wobble when I'm wiping down the edges during cleaning.

As for water ingress in the rear quarter lights, I removed them when installing the rear indicators. I'm not sure if it was foam patches installed at the factory to prevent them running against the bodywork, or whether dirt and debris had managed to work its way in, but there was quite a build up of crud around the screw holes and various other locations there. I cleaned it up and I now pay particular attention there when cleaning the car to ensure no water or dirt gets in.

One other thing I noticed when I removed the light cluster it would appear either the factory didn't do a good enough job whilst painting, or someone had scratched it, however, there was at least a 1cm bare metal area in the rear quarter light indent in the bodywork. This has now been dealt with.
 

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2021 LX AWD Modern Steel Metallic
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I had this problem. Dealer says the leak(s) were around the taillights, bad seal. Fix was $1000 ne lights!
In the 85 previous posts in this thread, several members have successfully remedied and documented their methods for alleviating this problem. Paying the dealer $1 thou is no guarantee that it will ultimately solve the problem. Examine the more practical, and less expensive, solutions previously documented.
 
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