The ministry warned that dozens of chronically-ill patients, especially those with cancer and kidney problems, could die soon, if they do not receive medicine.
The officials said its storages suffered 40-percent depletion, the Palestinian Ma’an news agency reported on Sunday.
They said the coastal sliver is facing a lack of medication for leukemia, blood problems, epilepsy, thalassemia and maternal health problems.
The ministry also expressed concerns that the stock of insulin and kidney dialysis fluid in Gaza’s hospitals and health centers could run out within days.
The crippling land, aerial and naval blockade imposed by Israel on the coastal sliver has also restricted the movement of people out of Gaza.
A coalition of 22 international NGOs and human rights groups said in late November that the system for issuing the patients exit permits were arbitrary, unpredictable and time consuming, a Press TV correspondent recently reported. Many die, while on the waiting list, he added.
The ministry blames the situation on the Palestinian Authority for refusing to send enough medical supplies to the Gaza Strip.