Wow, this has a pretty gripping storyline!  Although I'm personally not a fan of the art style, it definitely works for what you're doing.  The solutions to puzzles are really creative, albeit a bit tough to find.  Great work!

There are definitely a few bugs. I got stuck while moving from stage 1 to stage 2 because I was moving forward using the space bar instead of my mouse. I do really like how you are actually able to fix the code in stage 2 though. That was really cool!!! I'd suggest adding a "hint" feature of some sort in case people get stuck instead of having a separate walkthrough. You also may want to add a photosensitive epilepsy warning to the beginning. Overall, cool art, fun and challenging puzzles, and a very intriguing storyline. I look forward to seeing a completed version of this!!! (Please give full version I need to see the rest of the story!!!)

Great art style and fun puzzles with an interesting story to boot! More please :)

very creative and fun to read through