The invention provides an intelligent upgrading method for a program. The method comprises the following steps: 1, inserting a piece of field data at a file header of an original program file to generate an amended program file, wherein the field data comprises integrated check, file type, total number of alternative program version numbers, lengths of the alternative program version numbers, version numbers of alternative program versions, total number of upgrading program version numbers, lengths of upgrading program version numbers and version numbers of upgrading program versions; 2, downloading the amended program file to equipment; 3, receiving and storing the amended program file by the equipment, and analyzing the field data; 4, judging whether one alternative version meets the requirement on upgrading through the field data, executing cover upgrading if the requirement is met, and otherwise, giving up the upgrading. The invention also provides an intelligent upgrading system for the program. The efficiency and the reliability of the upgrading are greatly improved.