They did not enter Savannah for another 12 hours after they stopped the train, mostly likely because they didn't feel comfortable going into the city during the dead of night. Gary Whitta mentions this in the stream and Kenny also states it's been 12 hours depending on how you speak in the opening minutes of the episode.
They raid Crawford at night and by sunset, Vernon can see the herd, still far away but still moving. That is almost 24 hours there from the start of the episode, which is 12 hours since the last one, so figure 36 hours overall since they stopped the train. When Lee goes to sleep and wakes up, it's either a new day or the twilight hours of the same day and the herd does not appear until Lee and whoever else enters Vernon's base.
Overall, it's almost two days or more since they stopped the train so the herd would have had plenty of time to get there. Also, it could not necessarily be the same herd; Lee and his group had a huge traveling distance from the train station to Savannah still so this herd may be all the zombies between those intervening points with the rest catching up as Episode 5 continues so thousands upon thousands keep entering the city. Two days seems like a reasonable time period though for the herd to catch up to the group in Savannah.
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