Glasgow 2014 organisers said the transport situation will be monitored and assessed on a daily basis.
"Super Sunday" saw more than 700,000 people in Glasgow to attend free and ticketed events, according to Glasgow 2014 spokesman Jackie Brock-Doyle.
She said the number of visitors for the weekend totalled about 1.3 million.
"The figure I was given is that the entire population of Glasgow came through Glasgow's Central Station over the weekend," Ms Brock-Doyle said.
While train stations coped well, the volume of people overwhelmed transport links at park-and-ride facilities.
Some spectators reported waiting as long as two hours for park-and-ride buses at Silverburn, with some missing the start of the athletics at Hampden.
"Extra buses have been put on at the park-and-ride sites, we also have extra resources at Hampden Park," Ms Brock-Doyle said.
"People have queued but yesterday was the busiest day - in addition to all of the people travelling to Ibrox and Hampden, we also had 30,000 people who came out to watch the marathon, and then at Glasgow Green 46,500 people came out for that yesterday.
"I think it was over 20,000 in the Merchant City. So, it was without a doubt the busiest day, but extra resources have been put on."
Super Sunday saw competition in athletics, badminton, boxing, track cycling, hockey, lawn bowls, netball, rugby sevens, shooting, squash, swimming, table tennis and weightlifting.
"Fingers crossed today that everyone has got into Hampden Park well," Ms Brock-Doyle added.
"Every day we will look at how people get to our venues, arrive in the city, move around the city and the teams will look at that and adjust as they need to."