A different paradigm: Obsidian as an interface for the file explorer

Hey all, so I wanted to share a workflow I have adopted relatively quickly after a few iterations of my obsidian based pkm system, and though it might inspire some to follow me down the rabbit hole.

I started using obsidian like everyone through creating a vault in my documents. As notes started growing, and with them the desire to start linking to more of my university content, I moved the .obsidian one directory up and started opening my vault a level higher, to encapsulate my courses folders into the linking scope. This worked wonders. I could link to every lecture slides, pdf, or video I was given during my studies.

As a small side note, I should say that I got in the habbit very early on to download everything I could during my studies for future reference. I however realised that I just had no effective mean of accessing this information properly, and it as a result simply was left mostly dormant. Allowing for linking through obsidian simply unclocked all this knowledge.

As I further embraced the obsidian ways, I found myself wanting to also use it to manage other things, such as my administrative stuff, or finances. The issue was, this was in a other folder yet again (my folder organisation being structured around a few big folders, such as knowledge, adminstrative etc…). As a result, I moved my .obsidian folder yet again another directory up, at which point I basically found myself at the top of my entire folder structure (moving further up means starting to include computer program files in the vault).

And this is when it clicked. Obsidian doesn’t only work as a note taking app, it can also be what I didn’t realize the file explorer needed all this time: a file explorer user interface. An interface that not only lets you refer to different documents, but lets you anotate, link, and put into context as needed.

With this newfound knowledge in mind I started what to this day is the longest standing organisation scheme standing to date. I find that I nowadays almost never add something to my files without refering to it in some ways in my pkm system, and finally feel like I have truly unlocked access to my information.

As such if this post’s content is new to you, and you find yourself intrigued by this approach, I am happy to provide any extra needed information and tips or tricks I found over the last few months of living with this system (Vault structure, CSS snipets to hide folders from the vault file explorer etc…)

Cheers all!


thanks, great workflow.

I might start creeping up the file directory myself.

Apart from using Obsidian’s search syntax, operators e.g, file, path, content,line etc. I am also querying my vault/directory using advanced regex desktop search engines. If I were on Windows I would use …

Agent Ransack | screenshots

AstroGrep | screenshots

DocFetcher | screenshots


On my chromebook with Obsidian for Android I use grep

aGrep Android app


I can then easily open them in Markor which looks at the same vault folder/file directory as Obsidian.

[PS: for compatibility, in Files & Links …

I’ve disabled [[Wikilinks]], yet I still get the advantages of [[]]

Default location for new attachments
In subfolder under current folder
Subfolder name

I’d be using Obsidian at the top of my system too, if I weren’t using Obsidian Sync. Unfortunately Sync’s vault-size limit is too small for that — and if it weren’t, my phone and tablet’s storage are too small to store a vault that size. I’d worry about performance, too, if Obsidian had to index all of my many files. But ideally I would have Obsidian or something like it atop my whole system.

To do something similar I’ll use Markdown links for items outside the vault. I should find an app or script to automatically check for broken links, since Obsidian doesn’t update those when the target is renamed.


I’ve been doing something along similar lines. I throw documents of all different formats into my Obsidian vault, mainly markdown and Microsoft Word. I use both folders and linking extensively, and flip between the system file explorer (Finder on the Mac) and navigating with obsidian. I wish obsidian‘s native file explorer was more robust, but I live with what it is.

I ran into the same issue, and solved it as follow. My folder structure is as follows:

  • Documents:
    • 0-Obsidian_Vault
    • Knowledge
    • Administrative
    • etc…

I then open my vault at the “Document” level, but only sync at the “0-Obsidian_Vault” (which only contains my notes linking to everything else). This way you can link to anything, but all you notes are still nicely contained within a single vault that can easily be exported/backed up/synced without having to take the rest of the file explorer content with it.

I used to do this too, but found that keeping a vault separated from the rest meant I had an easier time syncing or backing up my notes alone. That being said I completely agree with you, a more robust built-in file explorer would go a long way to improving this workflow!

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Thanks for the great sharing! I too use obsidian to act as a portal to some of my daily document folders. Lately I would like to implement this to my office and make a document index system which would share with my colleague, but found that there’re two challenges for me:

  1. since our folders are stationed on an NAS shared drive, and not all the folders I would like to be included in this “index”, so a hyperlink to the selected folders or documents would be a better way. But there seems no easy way to update or manage shared folder paths as hyperlinks in obsidian

  2. we use both windows PC and Mac, and they treat folder path of a shared drive very differently. So it seems to me that I have to type 2 different hyperlinks to a single document in order to accommodate both OS system. Which is a real pain

Due to my limited IT knowledge, I’m not sure if there’re better ways to achieve this, maybe I could get some enlightenment from all of you here. :slight_smile:

You might have better luck posting those questions as their own help threads so more people will see them.

I have tried to use obsidian for file management too. There is a need for making notes for files and I think it is really powerful, but I gave up because of syncing and back up was a problem. And I was not sure about performance issues. I think I may give it another try after reading this, I am specially interested if you have a way to add notes to non-md files. Like scripts for it or something, that can be inspiring for others like me.

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I wonder if you still want to share these tricks with us, i am contemplating using such a scheme but need to know more on how and where to start.

Hey @Archie, appologies for the late reply (I have been away from the forum for a while). Adding notes to non-md files was basically one of the initial driving factor for the method described above. There is however no real means of doing that as far as I know. My approach as such has been more to create a “meta-note” if necessary, which could be named the same as the matching file and stored with it. There are also a few extensions assisting in that. The new pdf plugin lets you do just that for example.

However I should say that I find it more convenient to work the other way around. That is, not annotating on a file basis, but topic/subject basis. This allows for having a single meta-data note refering to multiple files.

Hope this helps!