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I use them for a lot of the typical reasons you mentioned, but I also use them a couple of other ways.

1. I have Bookmarks for specific ingredients I am trying to use up. So when I come across recipes that calls for something lingering in my pantry or freezer, I can mark them and then narrow down my options to figure out what I will actually make before said ingredient goes bad.

2. I have NEW 2015, NEW 2014, etc. bookmarks. I mark all recipes I make for the first time with the current year's Bookmark -- I love to see how many new recipes I make at the end of the year! If I make a recipe from an unindexed book, I create a Personal Recipe for it with just the title and source so I can add it to my tally for the year. I also mark these Personal Recipes with a "from unindexed book or magazine" Bookmark so I know to delete it later if the book does get indexed later on.

3. I have the most Bookmarks to help me keep track of my recipe clippings. I have them organized into binders and have indexed them all as either Personal Recipes or Online Recipes using the Bookmarklet if they are printouts from the internet. I mark each one with a Clipping Bookmark as well as a Bookmark denoting which category binder it is located in.

Curious to see how others use Bookmarks!

I imagine you were thinking of my post 6 months ago...and I am still at it, happily sorting and cataloging, etc.  I use paper a lot also.  The newest refinement is a stack of 3x5 blank cards near the computer, upon which I jot down an online recipe, its location [blog, my Pinterest account, etc.], and any necessary notes.  These are stuffed into a plastic recipe card box, also sorted by category with teeny-little labels on card indexes (I told you I was OCD).  That way I can shuffle through potential stuff paper-wise...easier than sliding through 100 entries in my EYB notes when deciding what to do with the zillions of Italian frying peppers just harvested this morning!  If I make a recipe and like it, the card moves to ANOTHER plastic box of "Made Recipes", including some that are from cookbooks that I have marked via EYB.  Sometimes, at my age, paper is easier.

If you want to read the first forum post about my Bookmarks, search "rivergait" 6 months ago.

TrishaCP -- your "books you haven't cooked from yet" Bookmark reminded me that I also have a "Made at least 1 recipe" Bookmark -- while I would like to be making more than just a single recipe from each one, an embarrassing look at my shelves convinced me that trying at least one from each needed to be a cooking goal of mine. If I've narrowed my options down to just a few recipes, if one of them is from a book I never cooked from before, I definitely lean toward trying that one. The longer I do this, the more I know I will need to reconsider keeping some of those books that keep eluding the "Made at least 1 recipe" Bookmark!

I use my bookmarks in many of the ways outlined above.  Definitely by ingredients since I frequently cook based on what I purchase from farm markets/stands.  I'd just come here to look at the recipes I've bookmarked under the "apples" and "butternut squash" categories. 

I love to entertain so I have bookmarks for "Make-ahead" meals, Entertaining - Appetizers, Entertaining - Salads, Entertaining - Mains and Entertaining - Desserts.  I also have a Breakfast & Brunch category.  When I get a new cookbook and go through it adding my post-it flags I also try to add the recipes to the relevent categories here so I don't forget about the recipes.  This year I started a "Baking - ToTtry 2015" bookmark to keep track of which baking recipes I've tabbed and this is the first place I turn when I get the urge to bake.

Other categories that may be of interest:

ChristmasCookies

Don't Repeat

Favourite Recipes

Occasions (so book marks for Mardi Gras, New Years, St Patrick's Day, Super Bowl etc)

Buttermilk and other ingredients I often found myself searching for ways to use like Ground Beef, Ground Chicken etc.

Lunches

Quick & Easy

One Pot Meals

"insert name of season" Entertaining

In terms of the "Book" bookmarks, I have categories for all the "Cookbook of the Month" cookbooks from Chowhound since so many of the recipes have been reviewed there and the CH member insights are invaluable.  I have a categore for Books I own that are not yet indexed where I've made recipes and added notes in the book vs recipe Notes section.  I have certain authors bookmakred so I can focus in on one of their recipes when I search. Similarly I have certain categories of books bookmarked - eg. British Books, Asian, Indian UK, Sichuan, Produce, Appetizers, Small Plates.  I set these up as not all my books have been categorized that way in EYB.

I've not yet played with the bookmark function in any serious way, but listening to the way folks are using them, maybe I should!!

I'm another candidate for the OCD bookmarker.  My system for recipes takes advantage of the fact that Bookmarks display alphabetically, so starting certain kinds with the same letter keeps them together as a category.

They include:

c.[cookbook title/author] for recipes that interest me from a particular cookbook; I usually mark these when I first obtain a cookbook (via purchase or library); they're the much tidier electronic equivalent of the sticky notes I used to use to flag recipes in a given book.

i.[ingredient]   By far the largest category of Bookmarks, they've saved me time and again when I review the fridge and pantry, or come home from the market. 

r.[type of recipe]   Examples:  r.slaw, r.gingerbread, r.polenta, r.tomato jam...  These are various versions of a dish in my cookbooks or online.  Repeatedly, I've found that reviewing different recipes for the same or similar dish will enable me to develop a synthesized "best" recipe, or sometimes to reject alternate versions and choose a "best" to stick with.  Sometimes they're a snapshot of interesting twists on a basic dish.

m.[season/occasion/cuisine]    Dishes that work well together for a menu:  m.Indian winter,  m.Mexican summer/fall, m.J's birthday 2014, etc.

z.[personal experience]    z.made is the largest collection among these bookmarks; z.on deck is an often-changing "short list" of recipes I really will make soon, z.never again (small but important), z.online recipe (ones that I've clipped and indexed that are part of the EYB Recipes available to all; currently this is the only way to track one's own, other than manually), z.annual Guild picnic, etc.

For books, my Bookmarks note the two locations in the house where stored, 'kitchen shelf' and 'sitting room'; these are the ones that I search within when preparing to cook.  Other Bookmarks for books note where books of interest are to be found:  library - checked out,  library,  Jan, Mary, etc.   Wishlist Bookmarks group books I'm interested in by subject matter:  home/seasonal, entertaining, preserving (broadly conceived), and reading.  Only a quarter or so of the books on my EYB Bookshelf are actually here in my possession.   Having wishlist Bookmarks has made it much easier to resist just buying every book I'm interested in. as it allows for review and prioritizing.  There's a 'wishlist' Bookmark that is restricted to my top five to ten lusted-for cookbooks -- very helpful for birthdays and "letters to Santa".

ETA: Like others, I have a 'not yet cooked from' bookmark that I'm gradually emptying.

Cati -- In order to do what TrishaCP is suggesting, you would need to do a search on your Bookshelf and use the "Only Show" filters to narrow your search to just those recipes tagged with your "to try" Bookmark. You can find it on the right side of your screen under Bookmarks "Only show recipes" -- if you click on it, a drop down will appear where you should be able to find any of the Bookmarks you have made. By doing the search this way and including a title or author in the search bar, you can search for more specific recipes within your Bookmark. 

I've included a screenshot to demonstrate -- of course the Bookmarks shown are my specific Bookmarks, whatever Bookmarks you have created will appear when you do the same thing on your own Bookshelf.

I made a bookmark - Refridgerator.  I always forget what's in there and end up tossing way too much.  When I get home from the CSA I list everything I brought home.

Once it's used, just remove it from the bookmark.

Not sure if this the right page/topic for my question but one thing I would like to see is being able to search using several bookmarks at the same time (for example March-side dishes-salads-asparagus-carrots-vegan or vegetarian).  Just curious if this is being worked on or whatever.  (And by the way a lot of good suggestions on this topic of using bookmarks.)

It is on our development to do list to improve the way that Bookmarks can be used, including searching by multiple bookmarks at once. In the meantime if you use the filters for the criteria you mentioned you will reduce down your search results a lot.