I'm an unashamed architect when it comes to writing our story, though I do a little bit of gardening at the very end to spruce things up.
I do a lot of screen writing, and script writing so I just keep to that ideal when working in comics. I'll think about what absolutely HAS to happen in the episode, so what are the big story points? I'll beat out the story, and then head to Trello! (Side note: writers, if you aren't using Trello IT WILL CHANGE YA LIFE! Fly my pretties!)
I use a 5 act structure for every episode of Kamikaze, so I'll take my beats, write them onto the little cards and move them into different acts to see how the flow feels. Sometimes acts are MUCH longer than I anticipate and things can get shifted around. The shifting can happen at any time, especially considering Trello makes it so easy. When I'm happy with the beat placement, I go into each card and write out bullet points for thost specific scenes. When it's all done it generally looks like this:
I'm crazy and write out the first drafts of each Beat in the little default notetaker/text document thing that most computers come with. It's archaic but it keeps me focused on getting the story down. As I write each bit out, I'll head to Trello to mark off which ones are finished and approved for insertion into the script, which ones are being written and which ones are still left to do. It really helps me stay organized.
Once I have each scene approved and finished, I throw everything into Celtx (a free scriptwriting program).
And then from there, we do a read through. This really helps us tighten the dialogue, fix continuity all sorts of stuff. Once that's done, we take the final script, print it out and break it down into individual pages and panels. That's what Alan's doing here:
Once everything's broken down we'll still fenagle it a bit. Even at the last second if there's a panel which feels confusing or we think there needs to be a bit more punch added (background environment, conversations, sound effects etc) we'll throw that in at the last second. When pages are done, I send off another text doc break down of the page to our partner Havana which she uses to add in lettering!
...It's an involved process. >.>