The episode begins with Tyson describing how pattern recognition manifested in early civilization as using astronomy and astrology to predict the passing of the seasons, including how the passage of a comet was often taken as an omen. Tyson continues to explain that the origin of comets only became known in the 20th century due to the work of Jan Oort and his hypothesis of the Oort cloud. Tyson then continues to relate the collaboration between Edmond Halley and Isaac Newton in the last part of the 17th century in Cambridge. The collaboration would result in the publication of Philosophiæ Naturalis Principia Mathematica, the first major work to describe the laws of physics in mathematical terms, despite objections and claims of plagiarism from Robert Hooke and financial difficulties of the Royal Society of London. Tyson explains how this work challenged the prevailing notion that God had planned out the heavens, but would end up influencing many factors of modern life, including space flight. Tyson further describes Halley's contributions including determining Earth's distance to the sun, the motion of stars and predicting the orbit of then-unnamed Halley's Comet using Newton's laws. Tyson contrasts these scientific approaches to understanding the galaxy compared to what earlier civilizations had done, and considers this advancement as mankind's first steps into exploring the universe. The episode ends with an animation of the Milky Way and Andromeda galaxies' merging based on the principles of Newton's laws.

Tyson begins the episode by explaining the nature of the speed of light and how much of what is seen of the observable universe is from light emanated from billions of years in the past. Tyson further explains how modern astronomy has used such analyzes via deep time to identify the Big Bang event and the age of the universe. Tyson proceeds to describe how the work of Isaac Newton, William Herschel, and James Clerk Maxwell contributed to understanding the nature of electromagnetic waves and gravitational force, and how this work led towards Albert Einstein's Theory of Relativity, that the speed of light is a fundamental constant of the universe and gravity can be seen as distortion of the fabric of space-time. Tyson describes the concept of dark stars as postulated by John Michell which are not visible but detectable by tracking other stars trapped within their gravity wells, an idea Herschel used to discover binary stars. Tyson then describes the nature of black holes, their enormous gravitational forces that can even capture light, and their discovery via X-ray sources such as Cygnus X-1. Tyson uses the Ship of Imagination to provide a postulate of the warping of spacetime and time dilation as one enters the event horizon of the black hole, and the possibility that these may lead to other points within our universe or others, or even time travel. Tyson ends on noting that Herschel's son, John would be inspired by his father to continue to document the known stars as well as contributions towards photography that play on the same nature of deep time used by astronomers.

The simple act of making an apple pie is extrapolated into the atoms and subatomic particles (electrons, protons, and neutrons) necessary. Many of the ingredients necessary are formed of chemical elements formed in the life and deaths of stars (such as our own Sun), resulting in massive red giants and supernovae or collapsing into white dwarfs, neutron stars, pulsars, and even black holes. These produce all sorts of phenomena, such as radioactivity, cosmic rays, and even the curving of spacetime by gravity. Cosmos Update mentions the supernova SN 1987A and neutrino astronomy.

Beginning with the origins of the universe in the Big Bang, Sagan describes the formation of different types of galaxies and anomalies such as galactic collisions and quasars. The episodes moves further into ideas about the structure of the Universe, such as different dimensions (in the imaginary Flatland and four-dimensional hypercubes), an infinite vs. a finite universe, and the idea of an oscillating Universe (similar to that in Hindu cosmology). The search into other ideas such as dark matter and the multiverse is shown, using tools such as the Very Large Array in New Mexico. Cosmos Update shows new information about the odd, irregular surfaces of galaxies and the Milky Way perhaps being a barred spiral galaxy

This episode explores the wave theory of light as studied by mankind, noting that light has played an important role in scientific progress, with such early experiments from over 2000 years ago involving the camera obscura by the Chinese philosopher Mozi. Tyson describes the work of the 11th century Arabic scientist Ibn al-Haytham, considered to be one of the first to postulate on the nature of light and optics leading to the concept of the telescope, as well as one of the first researchers to use the scientific method. Tyson proceeds to discuss the nature of light as discovered by mankind. Work by Isaac Newton using diffraction through prisms demonstrated that light was composed of the visible spectrum, while findings of William Herschel in the 19th century showed that light also consisted of infrared rays. Joseph von Fraunhofer would later come to discover that by magnifying the spectrum of visible light, gaps in the spectrum would be observed. These Fraunhofer lines would later be determined to be caused by the absorption of light by electrons in moving between atomic orbitals when it passed through atoms, with each atom having a characteristic signature due to the quantum nature of these orbitals. This since has led to the core of astronomical spectroscopy, allowing astronomers to make observations about the composition of stars, planets, and other stellar features through the spectral lines, as well as observing the motion and expansion of the universe, and the existence of dark matter.

This episodes the nature of the cosmos on the micro and atomic scales, using the Ship of the Imagination to explore these realms. Tyson describes some of the micro-organism that live within a dew drop, demonstrating parameciums and tardigrades. He proceeds to discuss how plants use photosynthesis via their chloroplasts to convert sunlight into chemical reactions that convert carbon dioxide and water into oxygen and energy-rich sugars. Tyson then discusses the nature of molecules and atoms and how they relate to the evolution of species. He uses the example set forth by Charles Darwin postulating the existence of the long-tongued Morgan's sphinx moth based on the nature of the comet orchid with pollen far within the flower. He further demonstrates that scents from flowers are used to trigger olfactory centers in the brain, stimulating the mind to threats as to aid in the survival of the species. Tyson narrates how Greek philosophers Thales and Democritus postulated that all matter was made up of combinations of atoms in a large number of configurations, and describes how carbon forms the basic building block for life on earth due to its unique chemical nature. Tyson explains on the basic atomic structure of protons, neutrons, and electrons, and the nature of nuclear fusion that occurs in most stars. He then discusses the existence of neutrinos that are created by these nuclear processes in stars, and that detecting such sub-atomic particles which normally pass through matter require subterranean facilities like the Super-Kamiokande that were used to detect neutrinos from the supernova SN 1987A in the Large Magellanic Cloud before light from the explosion were observed due to their ability to pass through matter of the dying sun. Tyson compares how neutrinos were postulated by Wolfgang Pauli to account for the conservation of energy from nuclear reactions in the same manner as Darwin's postulate on the long-tongued moth. Tyson concludes by noting that there are neutrinos from the Big Bang still existing in the universe but due to the nature of light, there is a "wall of infinity" that cannot be observed beyond.