A Certain Scientific Railgun
A subseries of A Certain Magical Index which focus on the scientific side on a side character Level 5 Railgun: Misaka Mikoto with her friends
Adachi and Shimamura
2 girls having trouble making friends and adapt in school life
After School Dice Club
Secondary school girls playing board games. (Has a few boys appear in some episode)
Akebi's Sailor Uniform
A girl who is the only one wear sailor uniform in a western uniform girl school enjoying school life with her friends
Akiba Maid War
A group of maids (mafia???) in Akihabara opening maid cafes and compete to gain more sales
Are You Lost?
Girls starts survival life on island after plane incident
Assault Lily BOUQUET
Girls (Lily) fighting monsters (Huge) with special weapon (Charms) for world peace
Asteroid in Love
Two girls make a promise to find asteriod and story of them with their astrogeo club friend
Girls (Ship) battle
BanG Dream! 2nd Season
Girls play bands. I recommend to go through 2nd season first as the art and storyline is better than 1st.
If you are more interested on the music instead of story, try Bang Dream Film Live.
Birdie Wing: Golf Girls' Story
Two girls with different background form a team and play golf
A girl of scientist father and ninja grandfather takes revenge on attack that kills her family and steals her father's experiment result
Bloom Into You
A romance story between two girls who have their own problem.
Bocchi the Rock!
A shy girl playing guitar with her band mates
BOFURI: I Don’t Want to Get Hurt, so I’ll Max Out My Defense.
Girls playing vr game. (Too bad not all are girls. But most of the characters include main character is girl)
Cooking with Valkyries
Girls cooking and having meal together.
16 girls working hard to achieve their dream as voice actor. (4 in a group)
D4DJ First Mix
Girls having music performance (DJ) in school.
Diary of Our Days at the Breakwater
Girls fishing club
Do It Yourself!!
Girls making things in DIY club
Dropkick on My Devil!
Comedy daily life between a college girl, a devil summoned by her and the devil's friends.
Encouragement of Climb
Girls climbing mountain and hill
Estab-Life: Great Escape
A group of girls and non-human helping those who needed to escape from their living area
Girls having sport competition to gain chance for a live concert
Mechanical battle dolls named after guns' names fight for victory
Girls' Last Tour
2 girls having their last trip in a destroyed world
3 girls trained to be a healer which can heal people with song. Songs are used frequently to replace dialog.
High School Fleet
Girls on battleship
Hina Logi: From Luck & Logic
Girls battle (Transform into magic girl)
Two story line.
1. 10 girls becoming idol where they were greatly influenced by a passed away idol
2. The romance story of their male manager and the passed-away idol
In the Heart of Kunoichi Tsubaki
Ninja girls having ninja training in a girls only village
In the Land of Leadale
Trapped in virtual game world series where she who was once a patient tied to hospital bed, become a royal elf with kids and grandkids
Is the Order a Rabbit?
Girls working in cafeteria and their school life
Iwakakeru! Sport Climbing Girls
Girls enjoying sport climbing
I’ve Been Killing Slimes for 300 Years and Maxed Out My Level
Reincarnate series where a witch lived 300 years in isekai and finally start making friends and family.
Girls playing band (having teatime in music room) and having happy school life
Girls study to be a member of kageki show (actor)
Katana Maidens: Toji no Miko
Girls (Toji) battle monster (Aratama) using special katana
Girls (Yokai) work in a hotel that serve both yokai and human
Kuma Kuma Kuma Bear
Trapped in virtual game world series where a girl received gift from GM which is the bear suit.
Girls camping in winter
League of Nations Air Force Magic Aviation Band Luminous Witches
Strike Witch series without battle but focus on using music to encourage people.
Let's Make a Mug Too
Girls make pottery in school club
Let Me Check the Walkthrough First
Two girls trying to clear the game as savior and return to the real world
Love Live! Nijigasaki High School Idol Club
10 girls (9 idols and 1 supporter) in school idol club story
Everyday life and fighting against crimes for peace by a secret organisation of girl agents (Lycoris).
Management of a Novice Alchemist
A fresh graduate alchemist open a new shop at a small village near the forest
Miss Shachiku and the Little Baby Ghost
A tired workperson being cured by cute young ghosts
Mobile Suit Gundam: The Witch from Mercury
Girl x Gundam. For me, it is first time seeing girls as mains in Gundam series
My Master Has No Tail
A racoon (tanuki) learning story-telling of funny story (rakugo) from fox (kitsune) in human town
I'm kind of surprised Lucky Star didn't make the list.
As much as i love kino i don't think it really belongs on this list since kino is pretty much confirmed non-binary :< great list otherwise!
Another one for your list: Azumanga Daioh!