My Research Notes for Bonaire -
My Research Note For Bonaire
In terms of shore dive sites, here's a list of good mainstream west coast sites (roughly north to south, omitting house reefs of dive op.s since I don't know where you're staying):
1.) Karpata - to the far north. A generally good site; to get here, you must commit to a one-way road, followed by a long, 'scenic' route home. So pair with another site, like...
2.) Tolo - just a nice site. Pretty easy entry. Good to pair with Karpata.
3.) 1,000 Steps - more for the huge stone stairwell than the site, though it can be good. It's the farthest north you can dive without committing to a one-way road.
4.) Oil Slick Leap - iconic giant stride in, reef is good and close to where you splash.
5.) The Cliff - a small vertical wall.
6.) Bari Reef - renowned as a nice reef that had impressive diversity in some study long ago, IIRC. You can get to it via a round-about, or as the house reef for Den Lamen and Sand Dollar Condo.s.
7.) Windsock - pretty easy entry, by a big pier that's a handy reference for entry & exit on night dives.
8.)
Hilma Hooker - the big wreck.
9.) Angel City - like
Hilma Hooker without the wreck; this far south, there's a double reef system, so swim out past the reef, over the sandy canyon, to the 2nd reef, and dive it.
10.) Salt Pier - only when no ship is in. You head out and dive around the pilings.
11.) Sweet Dreams - some of the far southern sites are ready lush, particularly in the shallows with gorgonians.
Those aren't the only good sites, but they're well-known (except Sweet Dreams; hardly anyone but me mentions it) and some are a bit distinctive for one reason or another.
If you want to try east coast 'wild side' diving, you could try Cai with BasDiving.com.
Topside in Kralendijk, get some gelato at Gio's.
Sometime in the week, take the receipt you hopefully kept from buying your $45 marine park tag with you (to save the entry fee), and do a scenic drive through at Washington Slagbaai Park. I assume the whale skeleton is still at the visitor center by the entrance.
Some people like to visit the Donkey Sanctuary.
On the west coast, drive by the Atlantis site and watch the kite boarders.
On the east coast, drive by Jibe City and watch the wind surfers.
Assuming you're staying the typical week long visit, that's a start.