In general, the large publishing houses seem good at exercising poor oversight of their associate editors and providing substandard editorial office service. Accordingly, I'm increasingly interested in publishing elsewhere. Below are a few comments on my experience with some journals, conferences, and preprint servers. Peer review is pretty noisy so these labels of Yes, No, and Maybe may change over time.
YES
MetaRoR- a single experience has been outstanding with critical but fair reviews. Not exactly high-throughput though it should be acknowledged that the process for journals to pick up articles from MetaRoR is developing and has to accommodate the quirks of each downstream journal.
Complex Networks and their Applications (CNA)- open to and accepting of submissions from different subfields. The Proceedings are handled by Springer Nature, which comes with the usual baggage.
Scientometrics- a storied journal that I'll submit to because of so many good articles in it from decades ago.
Zenodo- my preprint server of choice because of the ease of submission and ability to link to Github repos
arXiv- no complaints but appears to be getting overwhelmed
BioRxiv- no complaints
NO
Royal Society Open Science- contradictory and opaque decision making. A bit amateur.
Scientific Reports- slow and annoying in my single submission experience. Mega-journal issues.
PLOS One- was OK and now isn't. Mega-journal issues.
Heliyon- mega journal issues of the usual kind seems to have severe retractionitis.
Research Square- just not worth the effort of posting on it. Zenodo and arXiv are better choices.
MAYBE
Applied Network Science- both good and bad experiences with things seeming to depend on the handling editor
JASSS- a very knowledgeable editor but individual reviewers can be plaintive and pedantic
Quantitative Science Studies- started on a very promising note but seems to have become inward looking and less well-aligned with my interests
Social Network Analysis and Mining. Has some good articles in it and the review process I've experienced seems fair, if a bit slow.
CSSSA Sliding deadlines for submission and notifications.