The deluge meant Edinburgh and Glasgow both suffered three times their usual February rainfall.
However figures for the month show that 86.5 per cent of trains met the rail industry standard public performance measure (PPM).
Weather incidents accounted for a four per cent drop in PPM, halting a run of three consecutive periods of improvement in punctuality.
Otherwise PPM would have been higher than 90 per cent for the first time since June 2019.
A specially created web page during Storm Ciara, and content on social channels, reached more than one million people.
Scotland’s Railway managing director Alex Hynes said: “This was an exceptionally challenging period on Scotland’s Railway and unfortunately the weather prevented us delivering the level of service that our customers expect and deserve.
“Our people across the country worked flat out and did everything possible to keep services moving and get people to where they needed to be.
“It’s still a fantastic time to be part of Scotland’s Railway, after recent improvements in customer satisfaction, and more new and upgraded trains across the network, following Abellio’s £475 million investment.”