That's a bit of an apples-to-oranges comparison though. Things are more expensive at the bodega partially for convenience after all, they aren't directly competing with Safeway.
In a lot of cases there is an in between. I live near an independent full service grocery store (they have 2 locations) which isn't the cheapest in town and isn't the most expensive. They have a good selection. If they are 10% more expensive, I'm happy to support them.
If they are hiking prices up this much because of convenience, then they really shouldn't complain when people take a little bit of extra effort to go to the nearest big store.
The real value proposition of a bodega/corner store is that it it's on your corner, or the one 1/2 a block away. They used to have longer hours too, less so now that grocery stores open late or 24hr. So it isn't the place you went for a big grocery shop, but the place you dropped by when you forgot something or ran out of milk.
They've always been more expensive than grocery stores, doesn't matter if they are local independents or big chains.
In a lot of cases there is an in between. I live near an independent full service grocery store (they have 2 locations) which isn't the cheapest in town and isn't the most expensive. They have a good selection. If they are 10% more expensive, I'm happy to support them.