E-InvoicingMalaysia
🏥Last updated: March 2026

Best E-Invoicing Software for Healthcare in Malaysia 2026

Healthcare providers in Malaysia — from private hospitals and clinics to medical device suppliers — navigate complex e-invoicing requirements including consolidated e-invoice exemptions for patient billing, medical device tracking, and insurance claims processing. The healthcare sector must balance LHDN MyInvois compliance with patient data privacy regulations while managing diverse revenue streams from consultations, procedures, pharmacy sales, and insurance reimbursements.

Healthcare E-Invoicing Solutions

10 vendors found
Jom eInvoice logo

Jom eInvoice

Malaysia-built e-invoicing made simple for every business

LHDN CertifiedAPI Available
F&BConstructionRetail+5

From RM79/mo

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SQL Accounting logo

SQL Accounting

Malaysia's #1 accounting software with built-in LHDN e-invoicing

LHDN CertifiedAPI Available
F&BConstructionRetail+5

From RM80/mo

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Zoho Books logo

Zoho Books

All-in-one cloud accounting with automated MyInvois e-invoicing

Peppol ReadyLHDN CertifiedAPI Available
F&BConstructionRetail+5

From RM100/mo

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ClearTax Malaysia logo

ClearTax Malaysia

Enterprise e-invoicing middleware with AI data enrichment and ERP connectors

LHDN CertifiedAPI Available
RetailManufacturingConstruction+5

Contact for pricing

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Finexus AREMA logo

Finexus AREMA

Malaysia first live LHDN e-invoicing provider � 1M+ invoices/month

Peppol ReadyLHDN CertifiedAPI Available
RetailF&BProfessional Services+3

Contact for pricing

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Flick Network logo

Flick Network

Global e-invoicing middleware with 2000+ validation checks and Peppol

Peppol ReadyLHDN CertifiedAPI Available
RetailManufacturingConstruction+5

Contact for pricing

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InvoisPro logo

InvoisPro

AI-powered Peppol Access Point middleware � free tier available

Peppol ReadyLHDN CertifiedAPI Available
ManufacturingRetailConstruction+5

Contact for pricing

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Microsoft Dynamics 365 logo

Microsoft Dynamics 365

Native MyInvois e-invoicing in Dynamics 365 Finance and Business Central

Peppol ReadyLHDN CertifiedAPI Available
ManufacturingRetailProfessional Services+5

From RM700/mo

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Odoo Malaysia logo

Odoo Malaysia

Open-source ERP with native MyInvois and Peppol integration

Peppol ReadyLHDN CertifiedAPI Available
ManufacturingRetailConstruction+5

From RM100/mo

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QNE Accounting logo

QNE Accounting

Smart AI cloud accounting with Peppol and MyInvois built in

Peppol ReadyLHDN CertifiedAPI Available
RetailManufacturingConstruction+5

From RM62/mo

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Professional Services

Find an Accountant for Your Healthcare Business

MIA-registered accounting firms with MyInvois e-invoicing experience serving Malaysian healthcare businesses.

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Healthcare E-Invoicing FAQ

Are healthcare providers exempt from e-invoicing?
Healthcare providers are not exempt from e-invoicing. However, LHDN provides specific guidelines for consolidated e-invoicing in healthcare, particularly for B2C patient transactions. Hospitals and clinics can issue consolidated e-invoices for patient billing while providing individual receipts to patients as needed.
How does e-invoicing handle insurance claims in healthcare?
Healthcare e-invoicing solutions manage the split billing common in insurance-covered treatments. The system generates separate e-invoices for the insurance company portion and the patient co-payment, tracks claim submissions, and reconciles payments across multiple payers for the same episode of care.
What about medical device tracking and e-invoicing?
E-invoicing for medical device suppliers and healthcare facilities must include product identification codes, batch numbers, and regulatory classification data. This ensures traceability from manufacturer to patient while meeting LHDN's e-invoice data requirements and Medical Device Authority (MDA) regulations.
Can e-invoicing handle pharmacy and dispensary billing?
Yes. Healthcare e-invoicing solutions support pharmacy operations including drug dispensing records, controlled substance tracking, and SST handling for pharmaceutical products. The system distinguishes between prescription medications (which may have tax exemptions) and over-the-counter products for accurate e-invoice generation.
How do private hospitals manage e-invoicing across departments?
Private hospitals use departmental e-invoicing where each department (emergency, outpatient, inpatient, pharmacy, radiology) generates charges that are consolidated into a single patient e-invoice. The solution must handle complex charge aggregation, departmental cost centers, and multi-payer billing scenarios.

Check Your E-Invoicing Readiness

Not sure if your healthcarebusiness is ready for LHDN's e-invoicing mandate? Use our free readiness calculator to find out.