Short answer. Generally yes. Article 91 provides that the period runs again when proceedings terminate without the accused being convicted or acquitted. A dismissal that decides nothing on the merits therefore puts the clock back in motion, and the time that had already elapsed before filing still counts against the period.
What the law says
shall commence to run again when such proceedings terminate without the accused being convicted or acquitted, or are unjustifiably stopped for any reason not imputable to him
Revised Penal Code, Article 91 — When Prescription Starts Running. Read the full provision →
What the sentence actually provides
Article 91 says the prescriptive period shall commence to run again when such proceedings terminate without the accused being convicted or acquitted, or are unjustifiably stopped for any reason not imputable to him. A dismissal on a technical ground, a withdrawal, a case struck for want of a formality — none of these is a conviction or an acquittal. So the interruption that the filing produced comes to an end, and the period resumes. The Code treats a case that resolved nothing as leaving the parties where the prescription rules had put them.
Resuming is not restarting
The wording is run again, and the difference from a fresh start is often decisive. Whatever had already elapsed between the running of the period and the filing of the complaint stays spent. What is available afterwards is the remainder, not the whole. A complainant who lost several years before filing and then had a case dismissed may have very little left, while one who filed promptly may have most of the period intact. Working out which situation you are in requires the original start date, not just the date of the dismissal.
Two situations sit outside the rule
The article restarts the clock only for proceedings that end without a verdict. Where the case ended in a conviction or an acquittal, prescription of the offence is no longer the live question — the criminal liability has been disposed of, and different rules govern what follows. The second limb, on proceedings unjustifiably stopped for a reason not imputable to the accused, protects a person whose case has stalled through no doing of his own. Whether a particular delay falls inside that description is decided on the record.
What to do with a dismissal order
Get a certified copy of the order and note whether it disposed of the case on the merits or not, because the answer to this whole question is on its face. Note the date it became final. Then set that against the date the period began running and the date the complaint was filed. Those three dates, in that order, are what a lawyer needs to say whether refiling is still open. Do it early — a period that resumed is running now, and the margin is usually smaller than people expect.