OOF, I feel you on that, I had a very hard time keeping up with things and managing my own stuff so sometime in 2016, I said ST0P and I started making Word files. My brain tends to shut down even with files open so if you can't handle organisation without, I do recommend making some notes.
This is going to be a long post, just a heads up.
I am posting this to share my experiences in detail and to be able to help someone with their own management in case they need some sort of base or template.
I have around 180 bookmarks that are there purely for Flight Rising, and 10+ Word/Notepad/Excel files made specifically for this site. Let's also not forget more than 3000 other image files also there to help out with managing the site work, 1/3 of which are screenshots from another game... *facepalms*
But yeah, I save images of my dragons, I make some avatars, I make some banners, pixel art, complex digital art, write lore, save outfit images, skins and accents, other people's art, etc. It's just there for easier personal navigation but also to keep it safe in case something happens to the files or in case I can't find it online anymore. I am a serious file hoarder U^U
When it comes to stuff on-site, I use my Clan Profile to keep notes, scries, a part of lore, links, introduction and aesthetics in. My lair and Den (they're treated the same aka as active populace) are organised by job categorisation tabs:
Royalty 
(leaders, founders, rich peeps
Domestic & food 
(farmers, agriculturists, servants, herders, cleaners, kindlers, etc)
Arts & crafts 
(mechanics, architects, builders, jewellers, carpenters, forgers, masons, ceramists, etc)
Gardening & floristry 
(garden tenders, pool tenders, waterway tenders, oasis caretakers, herbalists, florists, botanists, etc)
Exotic 
(birdkeepers, healers, dentists, Lapis traders, pathologists, necropolis tenders, weavers, linen traders, dyers, etc)
Social 
(bathhouse owners, oracles, storytellers, priests)
Financial & organisation
(funders, fund collectors, treasurers, librarians, traders, auctioneers, scribes, accountants)
Security & law 
(judges, protectors, soldiers)
Outlaws & nomads 
(desert pirates/bandits, nomads, tomb raiders, rogues).
The other two,
Newcomers and
Tourists & troops, are just there to keep unwanted dragons or dragons for sale in. Lore-wise they are treated as troops or tourists who visit our clan and pay for services.
Tab descriptions are there for some lore blurbs and effect. Dragon bios are for notes about the character until I actually code and write the whole bio.
All of my perma dragons are personal characters who have a place in the clan's community and, since I take my lore very scientifically seriously, I also have it very down-to-Earth, or in this case, down-to-Sornieth. Some long existential theories aside, I consider fictional stuff real, as long as it can follow rules of nature, so I take my clan lore super seriously because it means a lot to me personally. If I wanna go to another reality and geographical location, it sure would be my desert delta (but that's a whole other story).
Now to some Word/Excel files:
Smaller files
- Achievements (list of custom-made achievements for all sorts of different events and objectives)
- Acquaintances (file where I keep track of all of my dragons' acquaintances aka those whose links will go into their bios eventually)
- Lore (currently written lore of the clan, will be expanded eventually)
- Pirate Outbacks (the entire code of my clan's description saved just in case I accidentally delete it on-site)
Large files
- Dragon Apparel (list of all outfits and apparel components on every dragon I own, some still need to have their outfits made or updated; makes it easier for me to know what apparel I still need to buy; currently 16 pages)
- Egypt Flora (a document containing interesting Egypt flora with pictures and small descriptions; will be used for lore)
- Help because slow (HAHAHA old name from my previous laptop from 2016 and earlier because it was slow and couldn't handle large Word files; a compilation of a dragon bio code template, image urls and sale code templates; 20 pages)
- Jobs (personal convenience list of all required or existent jobs in my lair and their corresponding dragons; 1400+ words)
- Gods of Egypt (largest file; list of all currently (personally) discovered Egyptian deities + short notes; 56 pages)
- Projects (Excel file; has the calculation for all gene and breed change costs, and a list of all existing perma dragons in my lair with their name, sex, primary, secondary and tertiary genes and colours, ID, link, element and eye type)
Now to actual dragon management. Here are the steps I follow when taking care of a dragon project:
- follow list of colours I allow in lair and find a G1 I like according to those colours (list is one of the bookmarks)
- check Gods of Egypt file to find appropriate god name and check Jobs file to check if a specific job is fitting for the dragon and/or if the god name already has its assigned job
- make a scry for the dragon, save the morphology, temporarily add the morphology to the bio
- open Projects file and add the new dragon to the gene calculator and list, mark as completed when obtained
- make outfit in Dressing Room (now that we have the Database, I don't have to use an off-site one) and save it
- write down outfit in Dragon Apparel file and check what I have and what I don't have
- retrieve code from Help because slow file, add the code to the dragon's bio, go through the Database and img urls to complete the bio
- open Gods of Egypt to find the appropriate name for familiar and pets
- write lore for dragon and finish project
Bonus:
- spend 500+ hours playing Assassin's Creed: Origins trying to find the correct objects and scenery for a dragon or for art and lore, take screenshots and keep them (1400+ screenshots)
- make banners out of specific screenshots and add to dragon bio or use for art
- make own accent or skincent, or purchase another user-made one
- write lore in Creative Corner
- make clan map (BIG project)
- make art for dragons
Other things I do include doing research on biology such as zoology, botany and phylogeny, then geography (Egypt), climate, Egyptian history, culture, cuisine, fashion, language, theology, manage the Apparel Suggestion Congolmeration, make art for the Apparel Suggestions thread, do some collages of item suggestions, manage vista and venue suggestions, go through the list of accents, etc.
THERE, I hope this helps someone!
