Sorry, been pretty busy lately but haven’t forgotten about this. I will try opening the zip file soon and see if it loads properly that way and report back.
Ok, so, I finally got to try opening the folder and things have gone from bad to worse. 
So, yes, the gerber files are present in the folder. It is the 125b folder. Looks like it contains what it should. But now that it is open I can’t upload the entire folder to JLCPCB. So I deleted the download and redownloaded it but it is automatically unzipped now. So I seemingly don’t have the ability to download the folder in a zipped state anymore….? Sigh…
I can probably delete my history and clear cache and it might work then but I’ve had a long day and this is a bummer end to it so I’m gonna just leave it for now and go to bed. I dunno why I always have this sort of luck with things, I just wanna build a fun guitar pedal…. 
Man, sorry to hear that. Them computers do make our lives easier, sometimes, they can also totally trip you up.
I’m debating with myself the best way forward. It is possible to guide you through this. Rezipping the files or maybe get you a board some other way… But lifting my head for a bit and considering what is a head of you I can see more obstacles waiting.
Not the least, the Daisyseed will need programming and I can see this part being quite the tower to climb.
Basically, best would be if you had a buddy more into computers for some guidance.
Or select an easier pedal to build 
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Is this the zip file you have downloaded?
I download it, then uploading it to jlcpcb as is (.zip, dont even extract it) should get you there…