OpenKeychain is an OpenPGP implementation for Android. 

OpenKeychain - OpenPGP implementation for Android

Bouncy Castle Crypto APIs is a lightweight cryptography API for Java and CSharp. It has provider for the Java Cryptography Extension and the Java Cryptography Architecture. It supports TLS, PKCS7, PKCS12, OpenPGP, S/MIME, OCSP, TSP, CMP, Extended Access Control, ASN and lot more.

BouncyCastle - Lightweight Cryptography API for Java and CSharp

Cryptomator offers multi-platform transparent client-side encryption of your files in the cloud. Most cloud providers encrypt data only during transmission or they keep the keys for decryption for themselves. These keys can be stolen, copied, or misused. With Cryptomator, the key to your data is in your hands. Cryptomator encrypts your data quickly and easily. Afterwards you upload them protected to your favorite cloud service.
 
It works with Dropbox, Google Drive, OneDrive, MEGA, pCloud, ownCloud, Nextcloud and any other cloud storage service which synchronizes with a local directory. It uses AES encryption with 256-bit key length.

Cryptomator offers multi-platform transparent client-side encryption of your files in the cloud. Most cloud providers encrypt data only during transmission or they keep the keys for decryption for themselves. These keys can be stolen, copied, or misused. With Cryptomator, the key to your data is in your hands. Cryptomator encrypts your data quickly and easily. Afterwards you upload them protected to your favorite cloud service.



Cryptomator - Multi-platform transparent client-side encryption of your files in the cloud

KeyczarKeyczar is an open source cryptographic toolkit designed to make it easier and safer for devlopers to use cryptography in their applications. Keyczar supports authentication and encryption with both symmetric and asymmetric keys. Keyczar was originally developed by members of the Google Security Team. 
 
Keyczar is designed to be open, extensible, and cross-platform compatible. It is not intended to replace existing cryptographic libraries like OpenSSL, PyCrypto, or the Java JCE, and in fact is built on these libraries.

KeyczarKeyczar is an open source cryptographic toolkit designed to make it easier and safer for devlopers to use cryptography in their applications. Keyczar supports authentication and encryption with both symmetric and asymmetric keys. Keyczar was originally developed by members of the Google Security Team. 

Keyczar - Toolkit for safe and simple cryptography

EJBCA is an enterprise class PKI Certificate Authority software. It supports SSL/TLS, Smart card logon to Windows and/or Linux, Signing and encrypting email (SMIME), Mobile PKI, Secure mobile networks and lot more.

Ejbca - PKI Certificate Authority software

JSch is a pure Java implementation of SSH2. JSch allows you to connect to an sshd server and use port forwarding, X11 forwarding, file transfer, etc., and you can integrate its functionality into your own Java programs.

JSch - Java Secure Channel

Apache Shiro is a powerful and easy-to-use Java security framework that performs authentication, authorization, cryptography, and session management. With Shiro’s easy-to-understand API, you can quickly and easily secure any JVM-based application – from the smallest mobile applications to the largest web and enterprise applications.

Apache Shiro - Java Security Framework

Conscrypt is a Java Security Provider (JSP) that implements parts of the Java Cryptography Extension (JCE) and Java Secure Socket Extension (JSSE). It uses BoringSSL to provide cryptographical primitives and Transport Layer Security (TLS) for Java applications on Android and OpenJDK.The core SSL engine has borrowed liberally from the Netty project and their work on netty-tcnative, giving Conscrypt similar performance.

Conscrypt - Java Security Provider that implements parts of the Java Cryptography Extension and Java Secure Socket Extension

M-Pin Strong Authentication System enables true two-factor authentication for web sites and applications, based on the open source M-Pin Authentication Server and M-Pin Managed Service. The M-Pin™ Managed Service is a highly available, fault tolerant software as a service that issues cryptographic secrets to M-Pin Authentication Servers and Clients.
 
The M-Pin Authentication Server uses just one leak-proof cryptographic key, and can't reveal any information about your users such as identity or login details, even if the key is compromised. The M-Pin Client is an HTML5 browser, so developers can easily integrate M-Pin into their websites and applications, enabling frictionless two-factor authentication and removing all username / password vulnerabilities.

M-Pin Strong Authentication System enables true two-factor authentication for web sites and applications, based on the open source M-Pin Authentication Server and M-Pin Managed Service. The M-Pin™ Managed Service is a highly available, fault tolerant software as a service that issues cryptographic secrets to M-Pin Authentication Servers and Clients.

M-Pin - Two Factor Authentication For Web sites

The Dogtag Certificate System is an enterprise-class open source Certificate Authority (CA). It is a full-featured system, and has been hardened by real-world deployments. It supports all aspects of certificate lifecycle management, including key archival, OCSP and smartcard management, and much more. It supports Certificate issuance, revocation, and retrieval, Certificate Revocation List (CRL) generation and publishing, Encryption key archival and recovery and lot more.

Dogtag - Certificate System

The File Lock PEA (PEA = Password Encrypting Archive) encrypts data at the filesystem level and offers the possibility to decrypt single files or whole directories temporarily.

File Lock PEA - Filesystem-Level Encryption 

Password encryption tool with built-in text editor, to protect private notes. The program offers some styling and editing functionality for the text, a password generator, a password-strength meter and a virtual keyboard. The text is protected using authenticated encryption.

Notebook PEA - Text Editor with Password Encryption 

Password4j is a Java user-friendly cryptographic library for hashing and checking passwords with different Key derivation functions (KDFs) and Cryptographic hash functions (CHFs). The library fully supports Argon2, BCrypt, SCrypt and PBKDF2 and can produce and handle cryptographic salt and pepper.

Password4j - Cryptographic library that supports Argon2, Bcrypt, Scrypt, PBKDF2 and various cryptographic hash functions. 

Java implementation of Shamir's Secret Sharing algorithm as described in Applied Cryptography [as LaGrange Interpolating Polynomial Scheme].

Shamir Secret Sharing in Java

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