The yeshiva is an all-male Lithuanian (Litvish)-style Talmudic academy and is politically affiliated with Agudath Israel of America.

[9] In 2000, The New York Times described Ner Yisroel as being "unusual in that it has always allowed students access to secular, professional education.

[11] Although "Ner Israel's mission statement makes clear its priority is religious studies," the yeshiva's alumni have been estimated as 50% rabbis and religious-school teachers, and 50% as professionals: bankers, accountants, physicians, attorneys, psychologists, etc.

[17] His son Rabbi Sheftel Neuberger was full-time assistant 'menahel' from May 1987, the menahel (president) of the yeshiva from 2005, when he succeeded his father, until his death on February 10, 2021.

[18][19] Prior to 2005, Sheftel Neuberger was a Maggid Shiur in the yeshiva for many years, ending that position before Passover 1987 to become full-time assistant 'menahel'.

[26] Rabbi Aharon Feldman is as the rosh yeshiva (dean) and is also a council member of the Moetzes Gedolei HaTorah.

Ner Israel has two central study halls, one for the high school (known as the Mechina) and one much larger for the beis medrash and the kollel (also doubling as the main prayer sanctuaries).

There is an additional study hall/multi-purpose room of a smaller size that is called the "Friedman Beis Medrash".

In recent years, Ner Israel has sent alumni to kollelim across the United States and several have founded their own institutions.

Other Lithuanian-style Yeshivos follow almost exclusively the Rabbi Boruch Ber Leibowitz style of the Brisker method.

Kollel Avodas Levi is a department of the Yeshiva that is composed of older students, mostly married, who are engaged in advanced studies.

At the end of the school year, the students take an exam on the entire tractate that was studied in the Bekius program.

Former students recount how decades later they still have an incredible recall of the tractates that they studied in the Mechina's Bekius program.

Students of Ner Yisroel's Kollel Avodas Levi have the option to participate in the Star-K Rabbinical Training Program, which prepares them for Kashrus supervision.

Ner Yisroel's Machon program, which began in 1962, trains religious educators for Jewish communities and schools and students earn a Torah Umesorah recognized certification.

Rabbi Herman Neuberger was very instrumental in bringing to the United States over 1,000 young Persian men, most of whom studied in Ner Yisroel.

There are large communities of Orthodox Persian Jews in Baltimore, Los Angeles, and New York that are a direct result of Rabbi Neuberger's efforts.

The camp was founded by Rabbi Moshe Fuller, who began himself as a South American student of the Yeshiva.

[42] Additionally, many students visit older members in the community in the nearby Levindale Hebrew Geriatric Center and Hospital on Fridays.