The mayor also called off work in government offices in the city, except those providing frontline services.
Climaco-Salazar issued the order even as rescue teams were deployed to the city's flooded areas as early as 3:00 a.m., according to a post in her Facebook page.
She also instructed barangay officials to use the five-percent calamity fund to assist their constituents.
Climaco-Salazar also advised people along riverbanks and low-lying areas to "seek safer grounds while weather condition remains abnormal."
On Monday, residents in at least 10 villages had to be evacuated amid the heavy rain brought by the inter-tropical convergence zone.
The rain that hit the city since Friday "has inundated low-lying areas causing another evacuation in at least 10 barangays."
Earlier, Climaco-Salazar said Zamboanga City officials are studying whether to relocate some evacuees from last month's fighting to safer ground in the wake of last weekend's heavy rain and floods.
Zamboanga City is still recovering from last month's crisis involving fighting between government and Moro National Liberation Front (MNLF) forces. (PNA)