Thanks for the report! Controllers aren't officially supported, but I'll probably try to add controller support in the future. It's still not intended behavior - I'll look into it!
You're welcome! I assumed controllers weren't supported since some minigames use specific keys on the keyboard (the block pushing puzzles use "r", for instance), but I still prefer using a controller as long as the game mostly works with it. Also, a really, really tiny bug; 
That spot where Alex is standing is a warp spot to the other Shoreline map. If I come to this map from the cave, for some reason it doesn't work, but the one below it does. If I enter the map from another location, both exit tiles work. This doesn't hamper the game in any way (just push down to get to the next map), but I thought you'd want to know.